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MAKERERE UNIVERSITY

FACULTY OF SCIENCE

UNDERGRADUATE COURSES

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DEPARTMENT OF BIOCHEMISTRY

Physical BiochemistryCourse Name: Physical Biochemistry

Course Code: BCH1101 (2 CU)

Course Description:This is a first year Semester one course in biochemistry. It introduces students to the use of units of international system of units, properties of biochemical media (ionic strength, activity of a solute in aqueous solution, ionic strength, osmolarity, absorbance and transmittance Turbidity, temperature), units of concentration (molarity, normality, molarity, percent saturation, percent weight per volume, percent weight per weight, milligram percent and parts per million), Acid/base theory, pH, buffers, physical chemical properties of macromolecules. It ends with thermodynamic principles of biochemistry (laws of thermodynamics, energetic functions of state equilibria, energy conservation and free energy, redox reactions and redox potentials).

The course is divided into the following three major topics.

Properties of biochemical media pH and buffers Bioenergeticcs (Thermodynamics).

4. Course Objectives

To define different units of concentration and practice in their application To discuss buffers and their application To discuss pH and its biochemical relevance To use absorbance as a measure of concentration of solutions To discuss systems in the universe, laws of thermodynamics and energy functions of state. To introduce some of the mathematical aspects of biochemistry.

5. Teaching and Assessment patternDuration of CourseThe content of the course will be covered in 5 weeks of a 15 week academic semester with 5 hours of instruction per week and weekly 4 hours practical sessions.

Mode of InstructionMost of the instruction will be lecture orientated but students are allowed to ask questions during lectures.Students are obliged to do practicals which are under the supervision of year (class) coordinators and technicians.Students are encouraged to seek help outside the lecture room from fellow students, the course lecturer, other biochemistry lecturers and technicians or web/internet.There will be fortnightly assignments and weekly practical reports to be made of 10 practicals.There will be at least two major homework, assignments and one test.

Assessment Pattern

The following instruments will be used to assess the extent of growth in skills, abilities and understanding acquired.

Requirements No. of Units Contribution

Practicals (10) 10%Tests (1) 30%

Faculty of Science 2

Final Examination (1) 60%Total 100%

All scores will then be converted to letter grades using the system shown below.

Marks Letter Grade Grade Point

80 – 100 A 575 – 79.9 B+ 4.570 – 74.9 B 4.065 – 69.9 B- 3.560 – 64.9 C+ 3.055 – 59.9 C 2.550 – 54.9 C- 2.045 – 49.9 D+ 1.540 – 44.9 D 1.035- 39.9 D- 0.5Below 35 E 0

Reading List

The reading list will include but not limited to the following texts.

Segel, I.H (1976), Biochemical calculations, 2nd edition, John Wiley and sons. New York.

Morris, J.G. (1974); A biologist’s physical chemistry, 2nd edition, Edward Arnord – Adivision of Hodders & Soughton, London.

Lehninger, A.L, Nelson, D.L. and Cox, M. M. (1993) principles of biochemistry; 2nd edition, Worth Publishers, NewYork.

Vasuderevan, D.M. and Sreekumari, S (200p), Textnooks of biochemistry for medical students, 3rd

edition, Jaypee Brothers Medical Publishers (P) Ltd; New Delhi.

Stryer, L (1983), Biochemistry, 3rd edition, W.H., Freeman and Company, New York.

Course Outline

Properties of Biochemical mediaUse of units of international system of units, aqueous solution: activity of a solute in aqueous solution, ionic strength, osmolarity, absorbance and transmittance, turbidity, temperature. Units of concentration Morality, percent saturation (% saturation(, percent weight per volume (% w/v), percent weight per weight (% w/w), milligram percent (mg %) and parts per million (ppm).

pH and BuffersAcid/base theory and pH:Bronsted concept of acids and bases, strong acids and their bases and their titration curve ionic product of water, weak acids and bases and their titration curves, acid/base dissociation constants, Henderson – Hasselbalch equation.Buffers and physical-chemical properties of macromolecular.Definition of buffer, working of buffer, buffer capacity, preparation of buffers, blood buffers, polyprotic acids and amphoteric salts, pH indicators, Biochemical relevance of pH: pH-dependent ionization of amino acids, pH-dependent properties of proteins, Zwitterions, pH-dependent separation of mixtures of amino acids and proteins, regulation of pH in the body.


BioenergeticsTerminologies, systems in the universe, laws of thermodynamics, energetic functions of state and their symbols, equilibria, energy conservation and free energy, redox reactions and redox potentials, energy generating organelles. The flow of electrons in biological systems, theories of energy generation, shuttles systems, substrate level an doxidative phosphorylation, action of ionophores an duncouplers. Inhibitors of the electron transport chain system.

Suggested Teaching program

I. Properties of biochemical media (1 week) Assignment 1 Use of units of international system of units Aqueous solution Units of concentration

II. pH and Buffers (1 week) Assignment 2 Acid/base theory and pH Henderson-Hassel balch equation Buffers Polyprofic acids and Amphoteric salts pH Indicators Biochemical relevance of pH Regulation of pH in the body

III. Bioenergetics (1 week) Assignment 3 Terminologies Systems in the universe Laws of thermodynamics Energetic functions of state Equilibria Energy conservation and free energy Redox reactions and redox potentials Flow of electrons in the biological systems Theories of energy generation Substrate level and oxidative phosphorylation Action of ionophores and uncouplers Inhibitors of the electron transport chain system

IV. Practicals 10 practicals will be done within the 5 weeks

Course Test including 3 weeks of the lectures

Responsibility of the Student

Regular attendance and to do all assignments, homework practical reports and tests.

Responsibility of the Course Lecturer

Regular and punctual teaching, accurate and prompt grading of assignments, homework, practical reports, tests, tests and examinations and available to assist students after formal lectures.


Biomolecules: Structure and FunctionCourse Name: Biomolecules: Structure and Function


Course Name: Tissue Structure and Function


Course Name: Metabolism and metabolic regulation

Course code: BCH 1201 (5 CU)

Course description

This subject introduces students to cellular metabolism and energy transfer mechanisms. A description of the individual reactions that constitute the carbohydrate catabolic and anabolic pathways is given. It provides an understanding of nitrogen and fatty acid metabolism. The role of signals and hormones in maintaining homeostasis is explored. The understanding of metabolism provides a foundation for many subjects in biochemistry and biomedical sciences.

The subject also introduces the basic tools and methods of biochemical experimentation, the application of biochemical reasoning and presentation of results in written format.

The course is divided into the following five major topics:● Carbohydrate metabolism

●Lipid metabolism

● Amino acid metabolism

● Porphyrin and Nucleotide metabolism

●Metabolic intergration and regulation

Course Objectives

●To give students an understanding of how energy in form of ATP is derived from food consumed.

● To give students a good understanding of the role of various pathways, their relationship and control.

● To put metabolism in the intergrated context of the functions of organs and the whole body.

● To have a good understanding of the actions of hormones and hormonal interrelationship in the regulation of metabolism.

Teaching and assessment pattern

Duration of the course The course has two components i.e, lecture and practical session. The lectures and practicals will be covered in 15 weeks, 3 hrs of instruction per week and 2hrs per week for the practical.

Mode of teachingLectures, tutorials, reading assignment, practical classes.Assessment method


This will include assignments, tests, laboratory practical reports and end of module examination.

The following instruments will be used to assess the extent of growth in skills , abilities and understanding acquired

Requirements No of units ContributionTests 1 20%

Practical reports 7 20%

Final examinations 1 60%

All scores will then be converted to letter grades using the system shown below:

Marks % Letter Grade Grade Point80 – 100 A 575 – 79.9 B+ 4.570 – 74.9 B 4.065 – 69.9 B- 3.560 – 64.9 C+ 3.055 – 59.9 C 2.550 – 54.9 C- 2.045 – 49.9 D+ 1.5 40 – 44.9 D 1.035 – 39.9 D- 0.5below 35 E 0

Reading list● Lehninger, Nelson and Cox (1993). Principles of biochemistry. 2nd edition, Worth Publishers, New York.

● Voet D., Voet J., Pratt C.(2006). Fundamentals of Biochemistry, life at molecular level. 2nd edition published by John Wiley and Sons,Inc.

● Stryer (1992). Biochemistry. 5th edition, W.H freeman and Company, New York.

● Murray, Granner, Mayes, Rodwell (2003). Harpers Illustarated Biochemistry, 26 th edition,Mcgraw-Hill Companies U.S.A.

Course outlineCarbohydrate metabolism Glycolysis, Krebs cycle, pentose phosphate pathway, Mitochondrial Electron transport and oxidative phosphorylation, gluconeogenesis, Glycogen metabolism mechanisms of action of insulin, regulation of metabolism in liver.

Lipid metabolismAbsorption of fats and activation of fatty acids, Beta-oxidation of unsual fatty acid,formation of ketone bodies, Biosynthesis of fatty acids, triacyglycerols and phospholipids and cholesterol biosynthesis, transport of cholesterol and regulation of lipid metabolism.

Amino acid metabolismProteolysis, amino acid pool, metabolic flow of amino acid nitrogen, fate of carbon skeletons, biosynthesis of other amino acid-derived compounds, heme metabolism.


Nucleotide metabolismSynthesis of purine and pymiridine nucleotidesDegradation of purines and pyrimidines, inhibition of purine and pyrimidine metabolism, Deoxyribonucleotides

Metabolic intergration and regulationOrgan specialization; the brain, muscle, adipose tissue, liver and kidney; inter-organ metabolic pathway, hormonal control (mechanism of action of steroid hormones); signal transduction(adenylate cyclase, protein phoshatase).

Suggested teaching program

Carbohydrate metabolism 3 to 4 weeks●Glycolysis, ●Krebs cycle, pentose phosphate pathway,

●Oxidative phosphorylation and photophosphorylation

●Gluconeogenesis,

●Glycogen metabolism

●Mechanisms of action of insulin on carbohydrate metabolism

Lipid metabolism 3 weeks●Absorption of fats and activation of fatty acids ●Beta-oxidation of unsual fatty acid

●Formation of ketone bodies,

●Biosynthesis of fatty acids, triacyglycerols and phospholipids ●Cholesterol biosynthesis ●Transport of cholesterol and regulation of lipid metabolism.

Amino acid metabolism 3 weeks●Proteolysis

●Amino acid pool,

●Metabolic flow of amino acid nitrogen,

● Fate of carbon skeletons,

●Biosynthesis of other amino acid-derived compounds,

●Porphyrin (heme) Metabolism

Nucleotide metabolism 3 weeks●Synthesis of purine and pymiridine nucleotides


●Degradation of purines and pyrimidines

●inhibition of purine and pyrimidine metabolism

●Deoxyribonucleotides

● Disorders of nucleotide metabolism

Metabolic intergration and regulation 2 weeks●Organ specialization; the brain, muscle, adipose tissue, liver and kidney;

●Inter-organ metabolic pathway,

●Hormonal control mechanism of action of steroid hormones signal transduction(adenylate cyclase, protein phoshatase).

Responsibility of the studentsRegular attendance, do all the assignments, practicals and tests

Responsibility of lecturerRegular and punctual teaching, accurate and prompt grading of practicals, assignments, tests, examinations and the lecturer should be available to assist students after formal lectures.


Principles and Applications of Biochemical MethodsCourse Name: Principles and Applications of Biochemical Methods


Course name: Cell BiologyCourse Code: BCH2102 (2 CU)Course Description Course objectives

The objectives of Molecular Biology course are: To know To understand To identify the To cover the To give deep knowledge in

Teaching and assessment patternDuration of CourseThe content of the course will be covered in 3-week academic semester with total 45 hours.Mode of Instruction

All of the instruction will be lecture-oriented and students can ask questions during the lecture.

Students are encouraged to search for help outside the lecture room from course instructor.

Lecture notes will be given to the students however the students are encouraged to go for further readings from libraries and web/internet.

Assessment pattern

Reading ListThe reading list will include but not limited to the following texts:

Harper’s Biochemistry. (Murray R., Granner DK and Mayes L). The World Of The Cell. (Becker H, Reece J and Poenie T). Lecturer Notes: Ass. Prof. Dr. Menha Swellam notes for Cell Biology

Course outlineCell Theory

The theory of cellular organization and the emergence of modern cell biology.Ultra-structure Organization

Classification of organisms by cell structure and identification of cell specialization; both unity and diversity of biology.

Cell organellesGeneral identification of different cell organelles and structures found in the cell

Plasma membranePlasma membrane structure and function

Intercellular membrane and organellesStructure of the different intercellular membranes and organelles and their function; mitochondria, chloroplasts, endoplasmic reticulum, secretory vesicles, lysosomes, Golgi complex, peroxisomes, vacuoles and ribosomes.

NucleusThe structure of the nucleus and its compartments and their function, transport across the nucleus.

1. Suggested Teaching Program

Teaching items Teaching hours AssignmentsI. Cell theory 1hour 1

Theory of cellular organization The emergence of modern cell biology


II. Ultra-structure organization 2hours 2 Classification of organisms by cell

structure Cell specialization: unity and diversity of

biologyIII. Cell and organelles

Structure of the cell and its organelles Plasma membrane structure and function General structure of the membranes

V. Intercellular membrane and organelles

5hours

15 hours

3

4

Structure and function of mitochondria Structure and function of chloroplast Structure and function of Golgi complex Structure and function of lysosomes Structure and function of peroxisomes Structure and function of Endoplasmic

reticulum. Structure and function of secretory

vesicles Structure and function of vacuoles Structure and function of ribosomes

VI. Cytoplasm, cytosol and cytoskeleton Structure cytoplasm and cytosol Structure and function of mitochondria Structure of the three cytoskeletal

elements Cellular movement; mobility and

contractility Microtubule bases movement Microfilament based movement Bacterial flagella rotation

VII. Nucleus Structure and function of nucleus Transport across the nuclear envelope

11 hours

3 hours

5

6

VIII. Test 7IX. Exam 8

Responsibility of the StudentRegular attendance, do all assignments, tests and exam.

Responsibility of the Course LecturerRegular and punctual teaching; accurate and prompt grading of assignments, test and examinations. Also available to assist students after formal lecture.


Microbial Biochemistry and Genetics

Course Name: Microbial Biochemistry and GeneticsCourse Code: BCH 2203 (3 CU)Course Description

An Introductory course for Biochemistry students with either or no background in Microbiology. The second year students are introduced to the basics behind the culturing and growth of Microbes, the factors affecting growth, mutations and metabolic pathways of microorganisms. The emphasis is put on bacteria (bacteriology). An introduction to Virology is also covered.The course is divided into the following major topics:

Microbial Growth Genetics Bacterial Energy Transductions Introduction to Virology

Course Objectives Give students an insight into the applicability of Microbial Biochemistry in different fields of

medicine, industry, agriculture etc To understand the behaviour of microorganisms, both in the laboratory and the environment Lay a foundation for students to specialise in different aspects of microbiology at a higher

level

Teaching Assessment PatternDuration of CourseThe content of this course are covered in one academic semester. The course has a total of 60 contact (45 Lecture hours = 45 CH & 30 Practical hours = 15 CH) hours which are covered over a one month period. The course has 4 Credit UnitsMode of Instruction

The course is taught through lectures Theoretical background to the practical approach is used to illustrate to students the different

aspects of the course Students are encouraged to access information on the internet to get the most recent research

works on various topics One course test is given at the end of the teaching schedules

Assessment PatternRequirement No. of units ContributionPA 40Final examination 60 Total 4 100All scores will then be converted to letter grades using the system shown below:Marks % Letter Grade Grade Point 80-100 A 5.075-79.9 B+ 4.570-74.9 B 4.065-69.9 B- 3.560-64.9 C+ 3.055-59.9 C 2.550-54.9 C- 2.045-49.9 D 1.540-44.9 D 1.035-39.9 D- 0.5Below 35 E 0

Reading ListLengeler, J. W., Drews, G and Schlegel, H. G (1999). The Biology of the Prokaryotes


Singleton, P (1997). Bacteria in Biology, Biotechnology and Medicine.

Course OutlineSuggested Teaching Program (4 weeks) Microbial growthContinuous culturesAssignment MutationsIsolation and mapping of mutantsIntroduction to VirologyTestExamination

Responsibility of the StudentAttend and actively participate in lecturesConduct individual in-depth study on the courseDo all assignments, course test and exams

Responsibility of the Course Lecturer(s)Regular and punctual teachingPrepare and regularly update lecture notesProperly set and mark assignments, tests and examsGuide students on how to get more information outside the formal lectures


Advanced Enzymology. Course name: Advanced Enzymology.

Course code: BCH2202. (2 CU)

Course description: This is advanced enzymology course. The pre-requisite for this course is BCH 1102 on structures and functions of biomolecules.

Derivation of steady state rate equation Factors affecting enzyme reaction rates Types of enzyme inhibitions Orders in kinetic reactions( Zero, first, second orders) Mechanisms of enzyme reactions

i) Lysozymeii) Ribonuclease Aiii) Chymotrysiniv) Carboxypeptidasevi) Lactate dehydrogenase

Course objectives To derive steady state rate equation for enzyme catalysed reaction. To show how different concentrations of substrate affect steady state rate equation. To show how key factors affect enzyme reactions rates. To define the types of enzyme inhibitions. To demonstrate different mechanisms involved in enzyme reactions with examples

Teaching and assessment patterns Duration of the course

The course content will be covered within a period of 3 weeks involving 30 lecture hours of lectures.

Mode of instruction Structured lectures will be conducted to cover all the topics listed.

Assessment Pattern is by test and examinationThe following instruments (Test and examination) will be used to assess the understanding of enzyme reaction mechanisms, types of enzyme inhibitors, orders and of reactions.

Requirements No of units ContributionTest 1 40%

Examination 1 60% 100%All scores above will be converted to letter grades using the system below:Marks % Letter Grade Grade point80-100 A 5.075-79.9 B+ 4.570-74.9 B 4.065-69.9 B- 3.560-64.9 C+ 3.055-59.9 C 2.550-54.9 C- 2.045-49.9 D+ 1.540-44.9 D 1.035-39.9 D- 0.5Below 35 E 0


Reading list The reading list includes but not limited to the following text books.i) Lehninger ,A.L, Nelson, D.L., and Cox, M.M. (1993) Principles of Biochemistry 2nd Edition.

Worth Publishers, New York.

ii) Stryer, L (1988) Biochemistry. 3rd Edition. W.H. Freeman and Co. New York

iii) Segel, I.H.(1976). Biochemical Calculations .2nd Edition

Course outline i) Derivation of steady state rate equation of Michaelis-Menten

ii) Factors affecting enzyme reaction rates Substrate concentration Enzyme concentration Temperature pH Inhibitors Cofactors Allosteric effectors

iii) Types of enzyme inhibitions Competitive inhibition Non competitive inhibition Uncompetitive inhibition

iv) Orders of kinetic reactions Zero order kinetic in which substrate is greater than Km. As a result the velocity is constant over

time and independent of substrate. Also product appears as substrate disappears with time.

First order kinetic in which only one type of molecule is involved as reactant. It is observed when substrate is smaller than Km.

K1

Second order kinetic in which 2 reactants are involved. A+B P + E Rate or velocity = K1[A] [B]

v) Mechanisms of enzyme reactions General acid base catalysis Covalent catalysis Metal ion catalysis

Examples to illustrate mechanisms are :Lyozyme, Ribonuclease, chymotrypsin, Carboxypeptidase, Lactate dehydrogenase.

Suggested Teaching Programme

i) Derivation of Michaelis-Menten equation 6 Lectures Steady state assumptions used in deriving the equationii) Diagramtic illustrations of how different concentrations of substrate affect Michaelis- Menten equation. 3 Lectures

iii) Factors that affect enzyme reaction rates 6 Lectures Substrate concentration Enzyme concentration Temperature pH


Allosteric effectors Cofactors Inhibitors

iv) Types of inhibitions 6 Lectures Competitive inhibition Non competitive inhibition Un competitive inhibition

v) Enzyme mechanisms 9 Lectures General acid base catalysis Covalent catalysis Metal ion catalysis

Illustrated with examples

Responsibility of student

To use course outline for further reading To read the suggested chapters in the recommended text books Present themselves for the test and university exams for the course. To be punctual for lectures and void absenteeism.

Responsibility of the course Lecturer

To give course outline to students To suggest key chapters in selected text books for further readings To be punctual for Lecturers To mark course tests and return the scripts to students. To submit examination questions and marking schemes to the course coordinator

Molecular BiologyCourse name: Molecular BiologyCourse Code: BCH2203 (4 CU)

Course DescriptionThis course exploring the explanation of central dogma of molecular biology through understanding of the aspects of molecular biology issues. It covers the structure and recombination of DNA and its function as instructional information in the cell; it is also discusses different types of RNAs and their processing as well as their role in protein synthesis. Moreover it covers transcription and translation processes that ends in protein synthesis and its targeting and assembly into different cell organelles. It ends with gene expression process and its regulation according to different theories. 2. Course objectivesThe objectives of Molecular Biology course are:

To know the structure of DNA, its meting and hybridization processes. To understand Enzymology of the DNA replication process and mechanisms of

recombination. To identify the processes behind the flow of genetic information from DNA to RNA and

ending with protein synthesis. To cover the processes of protein targeting and assembly. To give deep knowledge in gene expression and its regulation theories.

3. Teaching and assessment patternDuration of Course


The content of the course will be covered in 3-weeks academic semester with total 45 hours.Mode of Instruction

All of the instruction will be lecture-oriented and students can ask questions during the lecture.

Students are encouraged to search for help outside the lecture room from course instructor.

Lecture notes will be given to the students however the students are encouraged to go for further readings from libraries and web/internet.

Assessment pattern

Reading ListThe reading list will include but not limited to the following texts:

Harper’s Biochemistry. (Murray R., Granner DK and Mayes L). Molecular Cell Biology (Lodish H, Berk A, Zipursky L and Masudaira P). The World Of The Cell. (Becker H, Reece J and Poenie T). Genes (Lewin B). Lecturer Notes: Ass. Prof. Dr. Menha Swellam notes for Molecular Biology

Course outlineCentral Dogma of Molecular biologyThe principle of flow of genetic information from DNA to RNA to Protein. General outlines on the processes that involve DNA replication, transcription to RNA and translation . DNADNA Structure, hybridization, melting and recombination. Enzymology of DNA replication, DNA organization in the genome. DNA packing and repairing processes.RNAStructure of different types of RNA and their processing.Gene ExpressionGenetic code, general stages of transcription, the casts of transcription in both prokaryotes and eukaryotes, RNA polymerases and structure of promoters in prokaryotes and eukaryotes. Transcriptional factors in both types. Retroviruses and retrotransposons movement. General steps of translation presses, the cast of translation characters. Protein targeting and sorting both co-translation and post-translation import. Regulation of Gene ExpressionGene regulation in prokaryotic and eukaryotic cells. Strategies of adaptive enzyme synthesis (catabolic pathway, anabolic pathway and effector molecules). Lactose (lac) system of E.coli and operon concept. Tryptophan (trp)operon concept as repressible operon. Control of transcription and initiation of translation . Attenuation mechanism

Suggested Teaching Program

Teaching items Teaching hours AssignmentsII. Central dogma of molecular biology

Principle of genetic information flow Different processes involved in genetic

information flow

2 hours 1

II. DNA Structure (Alternative forms, Super-

coiled) Denaturation and re-naturation Organization in the genome Sequencing (Chemical and enzymatical

methods) Repeated sequences DNA packing

15 hours 2


DNA replication DNA repair Recombinant DNA

III. RNA Structure and processing of ribosomal

RNA Structure and processing of transfer RNA Structure and processing of massenger

RNA RNA splicing

3 hours 3

IV. Gene Expression Genetic code Stages of transcription Transcription in prokaryotes Transcription in eukaryotes Retroviruses and retrotransposons

15 hours 4

Teaching items Teaching hours Assignments Casts of translation characters Stages of translation Non-sense mutation and suppressor RNA Protein targeting and sorting Co-translation import mechanism Post-translation import mechanism

V. Gene Regulation Strategies of adaptive enzyme synthesis Lactose system of E.Coli Lac operon theory and its regulation Tryptophan (trp) operon theory and its

regulation. Control of transcription both positive and

negative control. Regulation after initiation of transcription

(Attenuation mechanism). Gene regulation in eukaryotes.

10 hours 5

VI. Test 1 hour 6VII. Exam 3 hour 7

Responsibility of the StudentRegular attendance, do all assignments, tests and exam.

Responsibility of the Course LecturerRegular and punctual teaching; accurate and prompt grading of assignments, test and examinations. Also available to assist students after formal lecture.


Food Science and Nutrition

Course Name: Food Science and Nutrition

Course Code: BCH 3101 (3 CU)

Course DescriptionThis third year course introduces students to food science and nutrition as specialty areas related to biochemistry. Students are introduced to dietary standards and their applications and to food composition, food composition tables and their applications. Proteins, carbohydrates and fats as well as energy and nitrogen balance are discussed with reference to students’ prior knowledge. Also covered are aspects of food microbiology, food processing and preservation and food spoilage. Techniques for assessing human nutritional status are presented, with a focus on biochemical techniques. The absorption, utilization and functions of the micronutrients of public health interest: Vitamin A, iron and iodine are discussed as are the deficiency disorders: Iodine Deficiency Disorders, Vitamin A Deficiency and Iron Deficiency and nutritional anaemia. Students are also given an overview of the inter-relationship between nutrition and infection. Lastly, primary nutritional diseases of particular importance to Uganda are introduced, including oedematous malnutrition and a biochemical analysis of the different theories of its aetiology is given.

The course is divided into two major topics with sub-topics within each: Food science

o Food compositiono Food microbiology and spoilageo Food processing and preservation

Nutritiono Dietary standardso Macronutrientso Micronutrients (of public health interest)o Assessment of nutritional statuso Nutrition and infectiono Protein-energy malnutrition

Course ObjectivesAt the end of the course students should be able to:

1. Describe the composition of major food groups2. Explain the application of food composition tables and dietary standards3. Describe food spoilage and the organisms involved4. Outline major food processing and preservation methods and the effects on nutrients in food5. Discuss macronutrients in the context of energy and nitrogen balance6. Describe the major approaches in assessment of nutritional status7. Discuss Vitamin A, iodine and iron and their deficiency disorders8. Explain the relationship between nutrition and infection9. Discuss the protein-energy malnutrition

Teaching and Assessment PatternDuration of Course

The content of the course will be covered in one 15-week academic with three hours of instruction per week.

Mode of Instruction Most of the instruction will be lecture-oriented, but students are free to interrupt the instructor and

ask questions. There are in-class group exercises on the application of dietary standards and food composition

tables. Students are encouraged to seek further information outside the lecture room from fellow students,

the course instructor, other instructors, the library and the Internet.


There will be one major test

Assessment PatternThe following instruments will be used to assess the extent of growth in knowledge and understanding:

Requirements No. of Units ContributionTest (1) 40%Final Examination (1) 60%

Total 100%




Reading ListNB: Some books are used to illustrate applications and are not to be read in their entirety.

General: Gibney, M.J., Vorster, H.H. and Kok, F.J. Eds (2002). Introduction to Human Nutrition.

Blackwell Publishing. The Nutrition Society Textbook Series.Specific:

West, C. E, F & Temalilwa, C. R. Eds. (1998). The composition of foods commonly eaten in East Africa. Wageningen, the Netherlands, Wageningen Agricultural University. (Used to illustrate applications of food composition tables)

Sehmi J.K. (1993). National Food Composition Tables and the Planning of Satisfactory Diets in Kenya. National Public Health Laboratory Services, Ministry of health, Kenya. (Used to illustrate applications of food composition tables)

Dietary Reference Values for Food Energy and Nutrients for the United Kingdom. Department of Health Report on Health and Social Subjects No. 41. London: HMSO. (Used to illustrate applications of dietary standards)

WHO (1983). Measuring change in nutritional status. Geneva: WHO. Reprinted in 1996. Gibney, M.J., Arab, L., Margetts, B. Eds (2002). Public Health Nutrition. Blackwell Publishing.

The Nutrition Society Textbook Series (2002). Hubbs B.C. & Roberts D. (1993) Food poisoning and food hygiene. Chapman and Hall, 6 th

edition. Eley, A.R. (1992). Microbial food poisoning. Chapman and Hall.

Course Outline Food scienceFood composition: Major food groups and the pattern of distribution of major nutrients: Cereals; roots, tubers, starchy fruits and vegetables; fruits and vegetables; legumes, nuts and seeds; milk and dairy products; animal products. Food composition tables and their applications. Bioavailability of nutrients.


Food microbiology and spoilage: Bacterial agents of food poisoning and food borne infection. Salmonella spp., Staphylococcus aureus, Clostridium perfringens, Clostridium botulinum, Brucella melitensi. Food borne viruses: Hepatitis A and Norwalk-like viruses. Mycotoxin fungi: Aspegillus, Penicullum, Fusarium.Food processing and preservation: Major methods and effects on nutrient composition: temperature control: sterilisation, pastuertisation, blanching, refridgeration, freezing. Dehydration. PH control. Use of chemical preservatives: cures, salt, nitrites, additives. Use of gases, irradiation, antibiotics. Packaging: canning. Malting. Effect of processing on nutrients. Nutrition Dietary standards: Overview of how dietary standards are derived. Application of dietary standards.Macronutrients: Energy, sources of energy, Atwater factors, energy balance. Carbohydrates and dietary fibre; proteins and nitrogen balance. Fats, essential fatty acids. Alcohol.Micronutrients (of public health interest): Sources of iodine; absorption and metabolism of iodine; thyroid hormones. Functions of thyroid hormones, thyroid hormone activity in pregnancy during iodine deficiency. Cretinism. Iodine deficiency disorders. Overview of assessment of iodine status. Control of IDD.Sources and absorption of iron. Iron exchanges in the body. Causes and types of anemia. Vitamin B 12

and folate. Iron deficiency, anemia and IDA. Assessment of iron deficiency and IDA. Control of iron deficiency and anemia.Vitamin A: Retinol, retinal, retinoic acid and carotenoids: sources, absorption, bioavailability. Metabolism. Functions of retinal and of other retinoids. Assessment of Vitamin A status. Vitamin A deficiency. VAD and infection.Assessment of nutritional status: Dietary assessment: retrospective and prospective methods. Food balance sheets. Anthropometry. Biochemical assessment. Clinical assessment. Advantages and disadvantages of each approach.Nutrition and infection: Mechanisms through which infection leads to malnutrition and how malnutrition causes infection. Examples: PEM, Vitamin A, Zinc. Diarrhoea, malaria, H. pylori infection, HIV/AIDS, measles.Protein-energy malnutrition: Classification of children with PEM. Types of PEM. Factors associated with stunting in Uganda. Evolution and biochemistry of marasmus. Characteristics of, and observations in kwashiorkor in relation to its evolution – infection, oxidative stress and malnutrition. Approaches in the management of severe PEM.


Food scienceo Food composition (6 hours): Major food groups and the pattern of distribution of major

nutrients: Cereals; roots, tubers, starchy fruits and vegetables; fruits and vegetables; legumes, nuts and seeds; milk and dairy products; animal products.

o Food composition tables and their applications. Bioavailability of nutrients. (3 hours)o Food microbiology and spoilage (6 hours): Bacterial agents of food poisoning and

food borne infection. Salmonella spp., Staphylococcus aureus, Clostridium perfringens, Clostridium botulinum, Brucella melitensi. Food borne viruses: Hepatitis A and Norwalk-like viruses. Mycotoxin fungi: Aspegillus, Penicullum, Fusarium.

o Food processing and preservation (6 hours): Major methods and effects on nutrient composition: temperature control: sterilisation, pastuertisation, blanching, refridgeration, freezing. Dehydration. PH control. Use of chemical preservatives: cures, salt, nitrites, additives. Use of gases, irradiation, antibiotics. Packaging: canning. Malting. Effect of processing on nutrients.

Nutritiono Dietary standards (3 hours): Overview of how dietary standards are derived.

Application of dietary standards. o In-class group exercise on the application of food composition tables and dietary

standards (3 hours)


o Macronutrients (6 hours): Energy, sources of energy, Atwater factors, energy balance. Carbohydrates and dietary fibre. Proteins and nitrogen balance. Fats, essential fatty acids. Alcohol.

o Micronutrients (of public health interest) (6 hours): Sources of iodine; absorption and metabolism of iodine; thyroid hormones. Functions of thyroid hormones, thyroid hormone activity in pregnancy during iodine deficiency. Cretinism. Iodine deficiency disorders. Overview of assessment of iodine status. Control of IDD. Sources and absorption of iron. Iron exchanges in the body. Causes and types of anemia. Vitamin B12 and folate. Iron deficiency, anemia and IDA. Assessment of iron deficiency and IDA. Control of iron deficiency and anemia. Vitamin A: Retinol, retinal, retinoic acid and carotenoids: sources, absorption, bioavailability. Metabolism. Functions of retinal and of other retinoids. Assessment of Vitamin A status. Vitamin A deficiency. VAD and infection.

o Assessment of nutritional status (2 hours): Dietary assessment: retrospective and prospective methods. Food balance sheets. Anthropometry. Biochemical assessment. Clinical assessment. Advantages and disadvantages of each approach.

o Nutrition and infection (1 hour): Mechanisms through which infection leads to malnutrition and how malnutrition causes infection. Examples: PEM, Vitamin A, Zinc. Diarrhoea, malaria, H. pylori infection, HIV/AIDS, measles.

o Protein-energy malnutrition (3 hours): Classification of children with PEM. Types of PEM. Factors associated with stunting in Uganda. Evolution and biochemistry of marasmus. Characteristics of, and observations in kwashiorkor in relation to its evolution – infection, oxidative stress and malnutrition. Approaches in the management of severe PEM.

TEST 1


Regular attendance; do the tests and the final examination; participate actively in class exercises.

Responsibility of the Course LecturerRegular and punctual teaching; accurate and prompt grading of the test and final examination; give students time to consult outside formal lectures.

Course Name: Advanced Immunology/Immunochemistry

Course Code: BCH3102 CU = 3

Course Description:

This course is intended to equip the student with the knowledge and understanding of the vertebrate immune system, its component and mechanism of immune responses with specific reference to the human immune defence system. The advanced is offered as an elective to third year students in the semester of every year. In addition the course exposes the students to practical application of immunological function and application of immunochemical techniques in various disciplines.

Course Objectives:

By the end of this course the student is expected to be able to:


Define immunology; Immunochemistry, Immunity, Immune system and immune responses. Name major organs of the immune system and explain mechanisms of immune reactions. Explain the importance of the immune system. Explain inappropriate immune reactions and consequences. Describe mechanism of immunological memory Describe mechanism for generation antibody diversity. Explain the principles of classifying immunoglobulins. Describe the biological/physiological functions of immunoglobulins Differentiate specific and non specific immune responses Differentiate B/T lyphocytes and describe process of development Describe antigen recognition by B/T cells Define an antigen, immunogen and haptens; and state the characteristics of a good antigen Describe antigen processing and presentation Define auto-immunity and explain origin of autoimmune diseases Describe MHC of man and role in tissue/graft rejection Define allergy/hypersensitivity and differentiate the different types of hyper sensitivity

reactions. Explain the basic principles of immunological methods and state their application in different

fields Explain the principles of vaccinology/immunizations.

Course outline

The general IS, organs of IS, immune responses and importance of IS, Non-specific vs specific immune system and types of cells involved. Lymphocytes (B/T lymphocytes), origin and development.Antigen recognition by B/T lymphocytes, antigen processing and presentation, antigen presenting cells (APCs).

Cell surface differentiation clusters or CDs; Immunogens, antigens and haptens, characteristics of good antigen/immunogens.

Antigenic determinants epitopes (linear and confromational epitopes)Antibodies or immunoglobulins, classes and subclasses, Ig-superfamily, structure of Ig molecule, biological/physiological functions of antibodies.Ig-genes, generation and antibody diversity

Major histocompatibility complex (MHC) of man, MHCI & II and class restrictions, role in tissue transplantation.

Allergy/Hypersensitivity: types of hypersensitivity reactions.Autoimmunity and origins of autoimmune diseases.Vaccinology/vaccination and principles and application.Immunochemical assay principles and techniques and application.

Lecture details

The Immune system, immune responses 2 hrsSpecific vs non specific immune systems plus cells involved 6 hrsAntigen recognition by B/T lymphocytes, antigen processing and presentation 1 hrCell differentiation cluster CDs (CD3, CD4, CD8 etc 2 hrsImmunogen antigen, hapten plus characteristics of good antigens 1 hrAntigenic determinants/epitopes (linear and conformational) 2 hrsAntibodies. Classes/subclasses, structures and functions 2 hrsImmunoglobulin genes and generation of antibody diversity 2 hrsMajor histocompatibility complex of man and roles in tissue rejection 2 hrsAllergy/hypersensitivity and types 2 hrsAuto-immunity/origi n of auto-immuno diseases 2 hrsPrinciples of vaccinology and application 2 hrsImmunochemical assay techniques and their principles/application 2 hrs


Total hours 30 hrs

Reading lists

Immunology Fourth Edition by Ivan Roit, Jonathan Brosoff and David Male Immunology An Introduction Third Edition by Tizard Lecture notes on Immunology Third Edition by Gordon Reeves and Ian Todd Immunology by Kurby Molecular Immunology Ed. By B.D. Hames & D.M. Glover. Immunochemistry in Practice Alan Johnson/Robin Thorpe 2nd Ed.

Assessment and Teaching pattern

The course content will be covered in 5 weeks, 6 hours each week giving a total of 30 hrs of Lecturer per week.

Mode of Instruction

Traditional lectures using Power Point presentations with intersection from students by asking questions and seeking clarification.Group discussion on some selected topics and uses of biological modes to illustrate more difficult concepts.Tutorials are conducted every week on course in areas identified by students.Students are also encouraged to complement lecture notes with texts and information from internet.

Assessment patternContribute

Course tests and take home assignments 40%Final exams 60%

Total 100%

Grading System



Immunological Methods and their Application

This part of the course introduces learners to the general principles employed in diagonistic immunology as well as other research fields. The principles underlying production of antibodies for use as reagents in clinical and research undertakings (immunochemistry) are also explored.

Learning objectives

To enable learners use knowledge gained from basic immunology to develop specific diagnostic and research tools.


Suggested teaching programme

Included in lecture details No. 6

Antigen-antibody interactions and immuno assays 2 hrsProduction of monoclonal antibodies 1 hrsDevelopment of and application of vaccines 2 hrsAssignment; review of an article on current trends in immunology 3 hrs

Advanced Molecular Biology and BiotechnologyCourse Name: Advanced Molecular Biology and Biotechnology

Course Code: BCH 3103 [4 CU]

Course Description

This module introduces students to molecular biology techniques and demonstrates the influence of recombinant DNA technology in modern Biotechnology. The module will include lectures on the key principles and techniques in molecular biology that are required for this process, including the concept of molecular cloning, cloning vectors (plasmids, bacteriophage lambda and others) and their hosts, expression vectors and their construction, synthetic DNA (synthesis of primers), amplifying DNA (The polymerase chain Reaction, PCR), C0T curves, transfection, reverse transcription and DNA sequencing, hybridization and labeling of nucleic acids. Construction principles and uses of gene/chromosome libraries (human, animal and plant gene libraries) as well as restriction fragment length polymorphism (RFLP) analysis will be covered under this module. Bacterial expression systems are the most commonly used in biotechnology therefore a component of the course will focus on cloning and expression of mammalian and plant genes in bacteria, and will also cover the use of in vitro and site-directed mutagenesis to change the sequences and properties of the recombinant proteins being expressed. The module ends with applications of genetic engineering in biotechnology and demonstrates the influence of Recombinant DNA technology in the production of mammalian products (such as human growth hormones and insulin) and vaccines, gene therapy, transgenic plants and animals, food processing as well as environmental bioremediation.

The course is divided into two major topics shown below: Genetic engineering (Recombinant DNA technology): Principles and techniques Practical Applications of genetic engineering (Recombinant DNA technology)

Course ObjectivesThe objectives of this course are to develop an awareness of:Advanced Molecular Biology

Advances in Molecular Biology – concepts and techniques The influence of recombinant DNA technology on modern biotechnology The fact that basic principles of gene expression underpin many, but not all, of the recombinant

DNA techniques used in the biotechnology industry Biotechnology encompassing the exploitation of natural as well as engineered microorganisms and

that designing an industrial scale-process requires special additional consideration.

Teaching and Assessment Pattern

Duration of CourseThe content of this course will be covered in 7.5 weeks of a one 15-week University academic semester with six hours lectures per week and four hours of practical/group discussion sessions to review the homework assignments and/or tests given. A total of 45 lectures and 30 practicals/tutorial hours will cover the content of this course.


Mode of Instruction The instruction will be both lecture-oriented and interactive discussions during lecture sessions Students are encouraged to source information from other facilities such as the web/internet, text

books and discussions with other biochemistry instructors and fellow students At least two major homework assignments and two tests will be given to students

Assessment PatternThe following instruments will be used to assess the student’s ability to understand and describe several advanced recombinant DNA techniques crucial to the design, expression and production of commercially important recombinant products.

Requirements No. of Units ContributionTests (2) 30%Final examination (1) 70%

Total 100%

All scores will then be converted to letter grades using the system shown below



Reading List

Wolf SL (1995) cell and molecular Biology, Wadsworth publishing companies California U.S.A.

Lewin B (1997) Genes Oxford University Press Inc. New York.

Weaver R.F. (1996) Molecular Biology 2nd Ed. Mc Graw-Hill Scinece.

Brown T.A. (2001) Gene cloning and DNA anlaysis 4th Ed. Blackwell Publishers.

The recommended reading will include but not limited to the following text books.

From Genes to Genomes (2002 First edition). Jeremy Dale and Malcolm Schantz. Wiley. Gene Cloning and DNA analysis (2001 4th edition). Brown, T.A. Blackwell Scientific Press. Principles of Gene Manipulation (2001 6th edition) Primrose, Twyman and Old. Blackwell

Scientific Press. Brock. Biology of Microorganisms (2000 9th edition). Michael T. Madigan, John M. Martinko

and ack Parker. Prentice Hall International, Inc.


Industrial Microbiology: An Introduction. (2001 1st edition). Waites, Morgan, Rockey and Higton. Blackwell Scientific Press.

Course Outline

Genetic engineering (Recombinant DNA technology): Principles and techniquesThe concept of molecular cloning, cloning vectors (plasmids, bacteriophage lambda and others), Hosts for cloning vectors, finding the right clone, expression vectors and their construction, synthetic DNA (synthesis of primers), amplifying DNA (The polymerase chain Reaction, PCR), C0T curves, transfection, reverse transcription and DNA sequencing, hybridization and labeling of nucleic acids will be covered in this module. Construction principles and uses of gene/chromosome libraries (human, animal and plant gene libraries), restriction fragment length polymorphism (RFLP), cloning and expression of mammalian and plant genes in bacteria, and the use of in vitro and site-directed mutagenesis to change the sequences and properties of the recombinant proteins being expressed will also be covered.

Practical applications of genetic engineering (Recombinant DNA technology)Production of mammalian products (such as human growth hormones and insulin) and vaccines by genetically engineered microorganisms, genetic engineering in plant agriculture, genetic engineering in animal and human genetics, genetic engineering and microbial fermentations/food processing, environmental biotechnology (environmental bioremediation).


1 Genetic engineering (Recombinant DNA technology): Principles and techniques

[4 Weeks, 40 hours] Assignment 1

Molecular cloning Cloning vectors (plasmids, bacteriophage lambda and others), Hosts for cloning vectors Finding the right clone Expression vectors and their construction Synthetic DNA (synthesis of primers) DNA amplifying (The polymerase chain Reaction, PCR) C0T curves, transfection, reverse transcription DNA sequencing, hybridization and labeling of nucleic acids, Construction principles and uses of gene/chromosome libraries (human, animal and plant gene

libraries) Restriction fragment length polymorphism (RFLP) Cloning and expression of mammalian and plant genes in bacteria Use of in vitro and site-directed mutagenesis to change the sequences and properties of the

recombinant proteins being expressed.

TEST 1

2 Practical applications of genetic engineering (Recombinant DNA technology)[3.5 Weeks, 35 hours] Assignment 2

Production of mammalian products (such as human growth hormones and insulin) and vaccines by genetically engineered microorganism

Genetic engineering in plant agriculture Genetic engineering in animal and human genetics Genetic engineering and microbial fermentations e.g food processing


Genetic engineering and environmental remediation (environmental biotechnology)

TEST 2


The student is charged with the responsibility of regular attendance, do all assignments, homework, tests and source for literature outside lecture rooms.


The instructor is responsible for regular and punctual teaching, accurate and prompt grading of assignments, homework, tests and examinations and availability to assist students after formal lectures.

Animal NutritionCourse Name: Animal Nutrition Course Code: BCH 3104 (2 CU)Course Description

Animal Nutrition deals with classification and function of nutrients, deficiency symptoms, digestive processes, characterization of feedstuffs, and formulation of diets for domestic animals. This course introduces third year students to animal nutrition, including digestive physiology and metabolism of livestock and other species; nutrient properties and requirements for different aspects of animal production and performance; principles of feed evaluation and ration formulation. This includes nutritional roles of carbohydrates, proteins, lipids, minerals, vitamins, and water. Digestion, absorption, and use of nutrients and their metabolites.

The course is divided into the following major topics: The Animal and its food Digestion in monogastric animals Metabolism of ruminants Breakdown of proteins and lipid Feeding standards for maintenance and growth Mammary gland and synthesis of milk constituents Metabolic diseases in animals

Course Objectives1. Describe the digestive physiology of ruminants as related to the animals' ability to convert feeds

into various high value products such as milk 2. Understand the factors that affect the processes of feed indigestion, propulsion, and digestion, and

how these factors determine end product release 3. Describe and integrate the absorption and metabolism of energy, proteins, lipids, minerals, and

vitamins in productive ruminants. 4. Evaluate and compare diets for domestic ruminants

Teaching Assessment Pattern

Duration of CourseThis course is covered as an elective in the first semester for third year students. The course has a total of 30 contact (30 Lecture hours) hours and 2 Credit UnitsMode of Instruction

The course is taught through lectures


Students are encouraged to access information on the internet to get the most recent research works on various topics

One course test is given at the end of the teaching schedules

Assessment PatternRequirement No. of units ContributionTests 30Final examination 2 70 TotalAll scores will then be converted to letter grades using the system shown below:Marks % Letter Grade Grade Point 80-100 A 5.075-79.9 B+ 4.570-74.9 B 4.065-69.9 B- 3.560-64.9 C+ 3.055-59.9 C 2.550-54.9 C- 2.045-49.9 D 1.540-44.9 D 1.035-39.9 D- 0.5Below 35 E 0

Reading ListMcDonald, P., Edwards, R. A., Greenhalgh, J. F. D. Animal Nutrition, 5th Edition1995,Pond, W.G. , Church, D. C., Pond, K. R and Schoknecht, P. A. Basic Animal Nutrition and Feeding, Wiley, 5th Edition 2005

Course Outline Suggested Teaching Program (4 weeks)

The Animal and its food Digestion in monogastric animals Metabolism of ruminants Breakdown of proteins and lipid Feeding standards for maintenance and growth Mammary gland and synthesis of milk constituents Metabolic diseases in animals

TestExamination

Responsibility of the Student Attend and actively participate in lectures Conduct individual in-depth study on the course Do all assignments, test and examination

Responsibility of the Course Lecturer(s)Regular and punctual teachingPrepare and regularly update lecture notesProperly set and mark tests and examsGuide students on how to get more information outside the formal lectures

Course Name: Industrial Biochemistry

Course Code: BCH 3201 [3 CU]


Course Description

This module introduces students to the industrial exploitation of biochemical systems (microorganisms and their associated processes) to make products with commercial value. The course encompasses production of microbial cells themselves, products from cells (drugs, chemicals and foods), and the use of microbial cells to catalyze particular reactions in large volumes. This module covers an introduction to industrial microorganisms and products, growth and product formation in biocatalysis, characteristics of large-scale fermentations, fermentation scale-up, energy production (ethanol, biogas etc), conversion of sunlight into biomass (bioreactors and biophotolysis), bioextractive metallurgy (microbial leaching, metal accumulation and complexation). It also covers the food and beverages industry: dairy products, cereal products, brewing, food additives, fruits and beverages, ripening, meat processing, spoilage and pest control. Production of biomolecules: insulin, interferon, viral antigens, growth hormones, rennin, antibiotics, biopolymers, pharmaceutical products, enzymes etc, extraction of enzymes, dyes, perfumes, detergents, and medicinal products is also a major component of this course. The course ends with an introduction to biochemical basis of waste management and pollution control, and covers the different types of waste, sewage and wastewater microbiology, conventional biological wastewater treatment technologies (activated sludge, fluidized bed reactor processes etc), wetland processes and resource recovery (biogas, biofertilisers).

The course is divided into four major topics as shown below: Industrial microbiology/Biocatalysis Microbiology of food processing Production and extraction of biochemical substances Biochemical basis of waste management and pollution control

Course ObjectivesThe objectives of this course are:

To equip students with a basic understanding of industrial biochemical systems and processes necessary for production of products with commercial value.

To equip students with techniques of extracting biochemical substances from biological material in order to add value to these substances

To equip students with basic skills necessary for the production of bioactive compounds To develop an awareness of the role of biochemistry in waste management


Duration of CourseThe content of this course will be covered in 6 weeks of a one 15-week University academic semester with five hours lectures per week and five hours of practical/group discussion sessions to review the homework assignments and/or tests given. A total of 30 lectures and 30 practicals/tutorial hours will cover the content of this course.

Mode of Instruction The instruction will be both lecture-oriented and interactive discussions during lecture sessions Students are encouraged to source information from other facilities such as the web/internet, text

books and discussions with other biochemistry instructors and fellow students At least four major homework assignments and two tests will be given to students

Assessment PatternThe following instruments will be used to assess the extent of the student’s growth in skills, abilities, and understanding of acquired during this course.


Requirements No. of Units ContributionTests (2) 30%Final examination (1) 70%

Total 100%




Reading ListThe recommended reading will include but not limited to the following text books.

Brock. Biology of Microorganisms (2000 9th edition). Michael T. Madigan, John M. Martinko and ack Parker. Prentice Hall International, Inc.

Industrial Microbiology: An Introduction. (2001 1st edition). Waites, Morgan, Rockey and Higton. Blackwell Scientific Press.

Handbook of Microbiology (1984) Volume V Microbial products. A.I. Laskin, H. A. Lechervalier CRC Press.

Course Outline

Industrial microbiology/Biocatalysis This section will provide an introduction to industrial microorganisms and products, growth and product formation in biocatalysis, characteristics of large-scale fermentations, fermentation scale-up, energy production (ethanol, biogas etc), conversion of sunlight into biomass (bioreactors and biophotolysis), bioextractive metallurgy (microbial leaching, metal accumulation and complexation).

Microbiology of food processingThe food and beverages industry: dairy products, cereal products, brewing, food additives, fruits and beverages, ripening, meat processing, spoilage and pest control.

Production and extraction of biochemical substancesProduction of biomolecules: insulin, interferon, viral antigens, growth hormones, rennin, antibiotics, biopolymers, pharmaceutical products, enzymes etc. Extraction of enzymes, dyes, perfumes, detergents, and medicinal products

Biochemical basis of waste management and pollution controlTypes of waste, sewage and wastewater microbiology, conventional biological wastewater treatment technologies (activated sludge, fluidized bed reactor processes etc), wetland processes, resource recovery (biogas, biofertilisers).



1 Industrial microbiology/Biocatalysis [1.5 Weeks, 15 hours] Assignment 1

Industrial microorganisms and products Growth and product formation in biocatalyses Characteristics of large-scale fermentations Fermentation scale-up Energy production (ethanol, biogas etc) Conversion of sunlight into biomass (bioreactors and biophotolysis) Bioextractive metallurgy (microbial leaching, metal accumulation and complexation)

2 Microbiology of food processing [1.5 Weeks, 15 hours] Assignment 2 The food and beverages industry:

o Dairy productso Cereal productso Brewingo Food additiveso Fruits and beverageso Ripeningo Meat processingo Spoilage and pest control

TEST 1 (after the first two topics of the course)

3 Production and extraction of biochemical substances [1.5 Weeks, 15 hours] Assignment 3

Production of biomolecules: Insulin, interferon, viral antigens, growth hormones, rennin, antibiotics, biopolymers, pharmaceutical products, enzymes etc

Extraction of enzymes, dyes, perfumes, detergents, and medicinal products

4 Biochemical basis of waste management and pollution control [1.5 Weeks, 15 hours] Assignment 4

Types of waste Sewage and wastewater microbiology Conventional biological wastewater treatment technologies (activated sludge, fluidized bed reactor

processes etc) Wetland processes Resource recovery (biogas, biofertilisers)

TEST 2 (after the last two topics of the course)


The student is charged with the responsibility of regular attendance, do all assignments, homework, tests and source for literature outside lecture rooms.



The instructor is responsible for regular and punctual teaching, accurate and prompt grading of assignments, homework, tests and examinations and availability to assist students after formal lectures.

Course Name: Clinical Chemistry and Disease Processes

Course Code: BCH3203 CU=3

Course Description

A study of the biochemical mechanisms of the body in relation to disease. It provides a link between medicine and the basic sciences and employs analytical and interpretive skills to aid the clinician in prevention, diagnosis and treatment of disease. This course is offered as part of the core curriculum for Third Year Biochemistry students.

Course Objectives

The course is aimed at teaching the following: The use of population reference values and markers in laboratory diagnosis and patient

care. An understanding of the underlying physiology and clinical manifestations and sequelae

of dysfunction of the vital organs. An understanding of the molecular basis of metabolic disorders and rationale for their

management. To understand the development and markers of neoplastic and immunologic disease


Duration of courseTo be taught over fifteen weeks covering approximately 3 hours per week in the second semester.

Mode of instructionAll teaching will be lecture based with suggested reading of specific texts to reinforce themes covered in lectures

Assessment PatternThe course work will be assessed during the semester by tests which will contribute to final assessment by examination at the end of the semester as follows.

Requirements # of units % contribution Tests 02 40Exams 01 60 . Total 03 100 All scores will then be converted to letter grades using the system shown below:


80-100 A 5.075-79.9 B+ 4.570-74.9 B 4.065-69.9 B- 3.560-64.9 C+ 3.055-59.9 C 2.550-54.9 C- 2.045-49.9 D+ 1.5


40-44.9 D 1.035-39.9 D- 0.5 <35.0 E 0.0

Reading List

Kaplan LA, Pesce AJ (1996); Clinical Chemistry theory, analysis, correlation. Third Edition. Mosby, St Louis

Burtis CA, Ashwood ER (1999); Tietz Textbook of Clinical Chemistry. Third Edition. Saunders, Philadelphia

Course OutlineThe course will instil an understanding of the molecular basis of disease from basic biochemistry of biomolecules, homeostasis, metabolism and gene regulation by covering the following areas:

Principle uses of laboratory tests in diagnosis, population reference values, function tests and treatment management.

Maintenance of fluid and electrolyte homeostasis and deregulation in disease Abnormalities of metabolism of biomolecules (proteins, lipids, carbohydrates, nucleic

acids). Molecular basis of inheritance, inborn errors of metabolism and genetic diseases. Neoplasia and immunological diseases

Suggested Teaching Programme

4 hours: Laboratory investigations. An understanding of population reference values. The predictive values of specific tests and their use in screening and diagnosis and patient care.

6 hours: Homeostasis. Composition of plasma protein and their functions. Renal and pulmonary function in the regulation of electrolyte and water in body fluids, acid-base balance and respiration.

7 hours: The endocrine functions of the hypothalamic-pituitary axis and the thyroid gland in homeostasis, metabolic regulation and developmental physiology. The endocrine diseases and endocrine effects of cancer and tumour markers. Calcium regulation and bone disease.

12 hours: Clinical manifestations and biochemical lesions in metabolic disorders of the biomolecules; distributing hours equally between the following sections:

i) In-born errors of metabolism, with examples of phenylketonuria, dissachride intolerance.ii) Porphyrin biosynthesis and metabolic lesions underlying the distinct presentations of porphyria.iii) Heme degradation with emphasis on paediatric complications

4 hours: Liver function, capacity and diseases affecting them. 4 hours: Genetic disease and neoplasias as well as the

common hemoglobinopathies. 4 hours: Diseases of the immune system 4 hours: Immunodefficiency, autoimmunity and inflammatory sequelae.


Comparative BiochemistryCourse: Comparative Biochemistry (CU = 2)

Code: BCH3204

Course Content

The course gives a comparative analysis of biochemical diversity and adaptive molecular evolution in living organisms in the areas of:

i. Protein and Nitrogen metabolism;ii. Respiratory pigments

iii. Invertebrate biochemistryiv. Aerobic/anaerobic adaptive mechanisms;v. Sterol/steroid functional and structural diversity in eukaryotic cells.

Course Objectives

i. To give species – specific structural variations of common proteins/enzymesii. To give the modes of nitrogenous end-product metabolism in the animal kingdom.

iii. To identify and give the functional properties of oxygen – binding pigments in vertebrates and invertebrates.

iv. To compare the intermediary metabolism of vertebrates with that of terrestrial and marine-based invertebrates.

v. To identify the kinetic components of the control mechanisms in obligate and facultative anaerobes.

vi. To identify the structural and functional differences of sterols and steroids of vertebrates, invertebrates, plants and fungi.

Course DurationThis course is covered in four weeks of a 15-week Semester by giving five 1 hour lectures per week.Total Number of 1-hr lecturers is twenty (20)

Course assessment

Requirements Contribution

Test (One) 30%Examination (One) 70%

Course Outline

i. Collagens; Albumen proteins, Caseins. Cuticular proteins; Chorion proteins, silk proteins; Esterases; phosphatases phospholipases; Nucleases. Ureotelic, uricotelic and ammoniotelic modes of nitrogen metabolism.

ii. Myoglobins, Haemoglobins, Haemocyanins, Haememerythrins.

iii. Carbohydrate and amino acid metabolism in insects, nematodes, crustaceans, mollusks.

iv. PEPCK in aerobic/anaerobic metabolism, succinate/propionate diversion. Pyruvate/lactate dead-end.

v. Sterols of vertebrates, insects, crustaceans, mollusks, porifera, protozoa, plants, fungi; steroid hormones, Ecdysteroids.


References

1. Mahler, H. R. and Cordes, E. H. (1969) Biological Chemistry. Harper and Row, New York.

2. Lehninger, A. L., Nelson, D.L., Cox, M.M. (1992) Principles of Biochemistry. Worth Publishers, New York.

3. Evered, D. and Collins, G.M. (1984), Origins and Development of Adaptations. Pitman, London.

Pharmacology and ToxicologyCourse Name: Pharmacology and Toxicology

Course Code: BCH 3205

Course DescriptionThis third year course introduces students to the core principles of pharmacology and toxicology. Pharmacokinetics is discussed with emphasis on the ways in which pH affects the pharmacokinetics of a drug. Students are introduced to the major classes of drugs and the modes of action. Toxicology is discussed with emphasis on the biochemical aspects: biotransformation of drugs and the biochemical basis of toxicity.

Course ObjectivesAt the end of the course students should be able to:

1. Describe the pharmacokinetics of a drug and the factors that influence it.2. State the properties of a receptor3. Give the criteria used to define a neurotransmitter4. Describe the major neurotransmitters of the peripheral nervous system5. Define “agonists” and “antagonists” and give examples from the human nervous system6. Describe, with examples, neuropeptides7. Describe, with examples, the mode of action of antibiotics8. Describe, with examples, the mode of action of non-steroidal anti-inflammatory drugs9. Define toxicology10. Describe the nature of toxic effects with emphasis on the biochemical basis of toxicity11. Outline dose-response relationships12. Explain the application of dose-response relationships13. Describe the factors that influence toxicity14. Outline routes of exposure and how they affect toxicity15. Discuss the biotransformation of foreign compunds

Teaching and Assessment PatternDuration of Course

The content of the course will be covered in one 15-week academic semester with two hours of instruction per week.

Mode of Instruction Most of the instruction will be lecture-oriented, but students are free to interrupt the instructor and

ask questions. Students are encouraged to seek further information outside the lecture room from fellow students,

the course instructor, other instructors, the library and the Internet. There will be one major test and a final (end of semester) examination.

Assessment PatternThe following instruments will be used to assess the extent of growth in knowledge and understanding:


Requirements No. of Units ContributionTest (1) 40%Final Examination (1) 60%

Total 100%




Reading List

Specific:

Course Outline Pharmacology

Pharmacokinetics: definition of pharmacokinetics. Absorption: different sites of absorption, pH-partioning, factors that affect absorption. Distribution: Plasma-protein binding and other factors that affect distribution. Entry of drugs into special tissues: the brain and the foetus. Elimination of drugs: introduction to metabolism of drugs. Excretion in urine: glomerular filtration, tubular reabsorption, tubular secretion. Other routes of elimination. Pharmacodynamics: Receptors. Neurotransmitters. The adrenergic and cholinergic nervous systems; serotonin, histamine, agonists and antagonists of each of these neurotransmitters. Neuropeptides. Antobiotics. Non-steroidal anti-inflammatory drugs. ToxicologyDefinition. Nature of toxic effects: inflammation, necrosis, enzyme inhibition; biochemical uncoupling and redox cycling; lethal synthesis; lipid peroxidation; covalent binding; receptor interaction; immune-mediated hypersensitivity interactions; immunosuppression; neoplasia; heritable changes; developmental and reproductive toxicity; receptor-mediated events; disturbance of function of excitable membranes; altered Ca2+ homeostasis. Dose-response relationships: ED50 and LD 50. Therapuetic index and margin of safety. Interpretation and application of dose-response curves. Factors influencing toxicity: species and strain; age; nutritional status; time of dosing; environmental factors; exposure characteristics; formulation and presentation. Factors influencing systemic toxicity: absorption, distribution, metabolism, elimination. Routes of exposure: peroral, percutaneous, inhalation. Biotransformation of xenobiotics. Phase I reactions: Oxidation: cytochrome P450 monooxygenase system. Microsomal FAD-containing monooxygenase. Alcohol dehydrogenase. Monoamine oxidases. Peroxidases. Reduction reactions. Hydrolysis. Hydration. Phase II (conjugation) reactions: type I and type II. Sulphation, glucuronidation, glutathione conjugation, acetylation, amino acid conjugation, methylation. Factors affecting metabolism: Species; sex; genetic factors; environmental factors; pathological state; age; diet. Intoxication vs detoxication. Tissue specificity of toxicity.

Suggested Teaching Program Pharmacology


o Pharmacokinetics (4 hours): definition of pharmacokinetics. Absorption: different sites of absorption, pH-partioning, factors that affect absorption. Distribution: Plasma-protein binding and other factors that affect distribution. Entry of drugs into special tissues: the brain and the foetus. Elimination of drugs: introduction to metabolism of drugs. Excretion in urine: glomerular filtration, tubular reabsorption, tubular secretion. Other routes of elimination.

o Pharmacodynamics (10 hours): Receptors. Neurotransmitters. The adrenergic and cholinergic nervous systems; agonists and antagonists Serotonin, histamine, agonists and antagonists of each of these neurotransmitters. Neuropeptides. Antibiotics. Non-steroidal anti-inflammatory drugs.

Toxicologyo The basics (4 hours): Definition. Nature of toxic effects: inflammation, necrosis,

enzyme inhibition; biochemical uncoupling and redox cycling; lethal synthesis; lipid peroxidation; covalent binding; receptor interaction; immune-mediated hypersensitivity interactions; immunosuppression; neoplasia; heritable changes; developmental and reproductive toxicity; receptor-mediated events; disturbance of function of excitable membranes; altered Ca2+ homeostasis. Factors influencing toxicity: species and strain; age; nutritional status; time of dosing; environmental factors; exposure characteristics; formulation and presentation. Factors influencing systemic toxicity: absorption, distribution, metabolism, elimination.

o Dose-response relationships (2 hours): ED50 and LD 50. Therapuetic index and margin of safety. Interpretation and application of dose-response curves. Routes of exposure: peroral, percutaneous, inhalation.

Biotransformation of xenobiotics (8 hours). Phase I reactions: Oxidation: cytochrome P450 monooxygenase system. Microsomal FAD-containing monooxygenase. Alcohol dehydrogenase. Monoamine oxidases. Peroxidases. Reduction reactions. Hydrolysis. Hydration. Phase II (conjugation) reactions: type I and type II. Sulphation, glucuronidation, glutathione conjugation, acetylation, amino acid conjugation, methylation. Factors affecting metabolism: Species; sex; genetic factors; environmental factors; pathological state; age; diet. Intoxication vs detoxication. Tissue specificity of toxicity.

TEST 1

9. Responsibility of the Student

Regular attendance; do the tests and the final examination

10. Responsibility of the Course LecturerRegular and punctual teaching; accurate and prompt grading of the test and final examination; give students time to consult outside formal lectures.


DEPARTMENT OF GEOLOGY

Hydrogeology

1. Course Name: Hydrogeology

2. Course Code: GLO 2204

3. Course Description

This is an introductory course in hydrogeology. It looks at groundwater within the hydrologic cycle. Basic aspects are considered of the occurrence of groundwater; different hydrogeological formations; abstraction using wells; groundwater flow concepts; groundwater exploration techniques; well hydraulics and aquifer tests from pumped wells. Finally it ends with the chemical quality and pollution aspects of groundwater.

The course is divided into the following six major topics: Groundwater Flow Hydrogeological Environments Water Wells Groundwater Exploration Well Hydraulics Groundwater Chemistry and Pollution


The objectives of the course are: To understand the importance of groundwater and its position in the hydrological cycle. To know and discuss the basic groundwater concepts. To describe and demonstrate the different hydrogeological environments. To identify main well construction and groundwater access methods. To use common scientific methods to explore for groundwater. To solve and apply regional groundwater flow problems. To discuss and interpret hydraulics of groundwater flow to pumped wells. To determine groundwater chemical quality and pollution requirements.

5. Teaching and Assessment Pattern

Duration of CourseThe content of the course will be covered in one 15-week academic semester with two hours of instruction per week that includes sessions to go over the assignments/exercises/homework/tests and one hour of weekly practical sessions.

Mode of Instruction Most of the instruction will be lecture-oriented, but students can still interrupt the instructor and

ask some questions. Students are encouraged to seek help outside the lecture room from fellow students, the course

instructor, other geology instructors, library, references, or the web/internet. There will be fortnightly assignments. There will be at least two major homework assignments and two tests.


There will be weekly practical sessions.

Assessment PatternThe following instruments will be used to assess the extent of growth of skills, abilities and understanding acquired:

Requirements No. of units ContributionTests, Practicals & Assignments (4) 40 %Final examination (1) 60 %Total 100 %

All scores will be converted to letter grades using the system shown below:

Marks (%) Letter Grade Grade Point80 – 100 A 575 – 79.9 B+ 4.570- 74.9 B 4.065 – 69.9 B- 3.560 – 64.9 C 3.055 – 59.9 C 2.550 – 54.9 C 2.045 – 49.9 D 1.540 – 44.9 D 1.035 – 39.9 D 0.5Below 35 E 0

6. Reading List

The reading list will include but not limited to the following texts:

Cook, P. G., (2003). A Guide to Regional Groundwater Flow in Fractured Rock Aquifers. CSIRO, Australia. 115p.

Driscoll, F.G., (1986). Groundwater and Wells (2nd Edn.). Johnson Filtration Systems Inc., Minnesota. 1089p.

Fetter, C.W., (2001). Applied Hydrogeology (4th Edn.). MacMillan, New York, NY. Hamill, L and Bell, F.G., (1986). Groundwater Resource Development. Butterworths, London.

344p. Hudak P.F., (2000). Principles of Hydrogeology (2nd Edn.). Lewis Publishers, Boca Raton,

USA. 204p. Kruseman, G.P. and Ridder, N.A., (1970). Analysis and evaluation of pump test data.

International Institute for Land Reclamation and Improvement (ILRI), Wageningen, 1970. Bulletin 11.

MacDonald, A., Davies, J, Calow, R. and Chilton, J. (2005). Developing Groundwater: A guide for Rural Water Supply. ITDG Publishing. 358p.

Todd, D.K., (1976). Groundwater Hydrology (2nd Edn.). John Wiley & Sons, New York. 535p. USEFUL NOTES: M. Owor Lecture Notes.

7. Course Outline

Groundwater and the Hydrologic CycleThe Origin Of Groundwater, The Hydrologic Cycle, Hydrologic Budget

Occurrence of GroundwaterAquifers, Aquifer Types, Physical Properties


Hydrogeological FormationsCrystalline Basement Rocks, Consolidated Sedimentary Aquifers, Unconsolidated Sedimentary Aquifers, Volcanic Terrains, Springs

Water WellsDrilling Methods, Well Construction, Well Development, Water Depth (Level) Measurements

Groundwater FlowHydraulic Gradient, Groundwater Velocity, Darcy’s Law, Flow Nets, Flow Net Boundaries

Groundwater Exploration

Groundwater Surveys, The Most Widely Used Techniques, Geophysical Well Logging, Responsibilities Of The Field Hydrogeologist, Project Reports

Well Hydraulics and Aquifer TestsSteady Flow To Wells, Transient Flow To Wells, Pumping Tests, Slug Tests

Groundwater Quality and PollutionQuality Components Of Groundwater, Composition Of Fresh Groundwater, Sources Of Contamination, Water Quality Standards, Groundwater Sampling, Electrical Conductance And TDS, Solute Transport


I. Groundwater and the Hydrologic Cycle [1 Week] Assignment 1

The Origin Of Groundwater The Hydrologic Cycle Hydrologic Budget

II. Occurrence of Groundwater [2 Weeks] Assignment 2

Aquifers Aquifer Types Physical Properties

III. Hydrogeological Formations [2 Weeks] Assignment 3

Crystalline Basement Rocks Consolidated Sedimentary Aquifers Unconsolidated Sedimentary Aquifers Volcanic Terrains Springs

IV. Water Wells [2 Weeks] Assignment 4

Drilling Methods


Well Construction Well Development Water Depth (Level) Measurements

V. Groundwater Flow [2 Weeks] Assignment 5

Hydraulic Gradient Groundwater Velocity Darcy’s Law Flow Nets Flow Net Boundaries

TEST 1

VI. Groundwater Exploration [2 Weeks] Assignment 6

Groundwater Surveys The Most Widely Used Techniques Geophysical Well Logging Responsibilities Of The Field Hydrogeologist Project Reports

VII. Well Hydraulics and Aquifer Tests [2 Weeks] Assignment 7

Steady Flow To Wells Transient Flow To Wells Pumping Tests Slug Tests

VIII. Groundwater Quality and Pollution [2 Weeks] Assignment 8

Quality Components of Groundwater Composition of Fresh Groundwater Sources of Contamination Water Quality Standards Groundwater Sampling, Electrical Conductance and TDS Solute Transport

TEST 2


Regular attendance; do all assignments, exercises, homework, field practicals and tests

10. Responsibility of the Course Lecturer

Regular and punctual teaching and field demonstrations/supervision; accurate and prompt grading of assignments, exercises, tests, practicals and examinations and available to assist students after formal lectures.


Economic Geology

1. Course Name: Economic Geology

2. Course Code: GLO 3102

3. Course Description:

This is an advanced course done in the final year. It requires good background in other courses like

Structural Geology, Tectonics, Rock Forming Processes, Geochemistry and Geophysics. The course is

divided into two parts. Part I deals with the fundamental principles of the genesis of ore minerals. Part II

handles the classic examples of the world-class ore mineral deposits covering all the metals.

The major topics of this course are:

Types and Genesis of Orebodies

Spatial Distribution of Orebodies

Mineral Economics

World-Class Ore Deposits


These are:

To familiarize with common terminologies in economic geology and mineral exploration.

To understand why certain parts of the earth are mineralized by introducing mineralisation

controls.

To introduce the screens for profitability in mining ventures and mineral markets.

To teach the various types of the major ore deposits and their impact on the economy of the

countries where they occur.


Duration of Course

This course is taught to the third year students in one 15-week semester. It is a 4 credit unit course with 2

hours of lectures and 2 contact hours of practicals per week.

Mode of Instruction

By lectures and use of wall charts and nystrom raised maps.

The Lecturer asks questions during lectures to enable the students be participatory.

After the introductory lectures the students start on practicals during the third week.

Practicals involve the various ore mineral collections in the Department.

Students are also taken out of the lecture rooms to demonstrate mineral exploration methods.

The practicals are assessed.


There are assignments given to the students after every major topic.

Students sit a course test after part I of the course and another one after part II.

During inter-semester break they are taken around either Eastern or Western Uganda to study “in

situ” the mineral deposits in those areas.

Assessment Pattern

The assessment of the students will be based on the following:


a) Practicals 12

b) Assignments 4

c) Tests 2 a-c 40%

d) Final Examination 1 60%

Total 100%

All the scores will be converted to letter grades as shown below:

Marks % Letter Grade Grade Point 80-100 A 575-79.9 B+ 4.570-74.9 B 4.065-69.9 B- 3.560-64.9 C+ 3.055-59.9 C 2.550-54.9 C- 2.045-49.9 D+ 1.540-44.9 D 1.035-39.9 D- 0.5Below 35 E 0

6. Reading List

Evans, A.M. 2000. Ore Geology and Industrial Minerals, An Introduction; Blackwell Science.

Evans, A.M. 1980. An Introduction to Ore Geology, Vol.2; Elsevier.

Jensen, M.L. and Bateman, A.M., 1981. Economic Mineral Deposits, 3rd Edition; John Wiley,

New York, USA.

Hutchison, C.S.H., 1983. Economic Mineral Deposits and their Tectonic Setting; The MacMillan

Press Ltd.

Peters, W.C. 1987. Exploration and Mining Geology, 2nd Edition, John Wiley & Sons.

Barifaijo, E., 2000. Lecture Notes in Economic Geology.

7. Course Outline

Types and Genesis of Ore Bodies


Ore and gangue minerals, ore reserves, grade and cut-off grade of ore, syngenetic and epigenetic ore

deposits, ore formation processes to include; magmatic, hydrothermal, metamorphic and surface

(sedimentary and volcanic exhalative) processes, modes of formation of ore deposits.

Spatial Distribution of Ore Deposits

Regional metallogeny, Bilibinean school, lineamentist school, global tectonics school, quantitative

metal school, mineral deposits and global tectonic setting.

Mineral Economics

Ore values, recoverable value of a mineral commodity, estimating profitability, metal markets.

World-Class Ore Deposits

Deposits associated with ultramafic and mafic rocks (chromite, precious metals, nickel, titanium,

volcanogenic massive sulphides, carbonatites and kimberlites), deposits associated with intermediate

and acid igneous rocks (mineralized granites, pegmatites, porphyry deposits and alkali granites), skarn

deposits, volcanogenic massive sulphide deposits associated with rhyolites.

Weathering as an ore forming process (laterites, supergene enrichment, placers and evaporites), banded

iron formations (BIFS), sedimentary manganese deposits, manganese nodules, sedimentary carbonate

hosted deposits, mineral deposits hosted by metamorphic rocks.

8. Suggested Teaching Programme

I. Types and genesis of orebodies (4 weeks) Assignment 1

Ore and gangue minerals

Ore reserves

Grade and cut-off grade of ore

Syngenetic and epigenetic ore deposits

II. Spatial Distribution of Orebodies (2 Weeks) Assignment 2

Regional metallogeny

Bilibinean school

Lineamentist school

Global tectonics school

Quantitative metal school

Mineral deposits and global tectonic setting

III. Mineral Economics (2 Weeks) Assignment 3

Ore values


Recoverable value of a mineral commodity

Estimating profitability

Metal markets

Test 1

IV. World-Class Ore Deposits (7 weeks) Assignment 4

Deposits associated with ultramafic and mafic rocks (chromite, precious, metals, nickel,

titanium, volcanogenic massive sulphides, carbonatites and kimberlites

Deposits associated with intermediate and acid igneous rocks (mineralized granites,

pegmatites, porphyry deposits and alkali granites)

skarn deposits

Weathering as an ore forming process (laterites, supergene enrichment, placers and

evaporites)

Banded iron formations (BIFS)

Sedimentary manganese deposits

Manganese nodules

Sedimentary carbonate hosted deposits

Mineral deposits hosted by metamorphic rocks

Test 2

Practicals will be continuous from week 3 up to week 15


Regular attendance, do all the assignments, practicals, attend all the field demonstrations, participate in

field excursions and write field reports.


Constant and punctual teaching, guide students during practicals, accompany and explain issues during

field demonstrations and outer fieldwork, accurate and prompt grading of assignments, practicals, field

reports, tests and examinations. Assist students after formal lectures.

MAKERERE UNIVERSITYDEPARTMENT OF GEOLOGY

1. Course Name: Engineering and Environmental Geology


2. Course Code: GLO 22063. Course Description

This introductory course provides an understanding of how earth materials are described and classified for engineering purposes. It introduces students to the fundamental aspects of soil mechanics, classification and properties of rock and soils; methods of site investigations for and role of geology in various engineering project; identification and mitigation of geologic hazards, methods of laboratory and in-situ testing of geological materials. Identification and remediation of earth hazards will focus on problems in slope stability, earthquakes and volcanic activity. The course will also cover water, air and soil pollution.

The course is divided into the following major topics:

Engineering properties of soil/rock materials and soil/rock masses. Stages of geotechnical site investigation. Engineering geological evaluation of dam and reservoir sites, transportation routes, building

foundations and tunnels. Introduction to rock and soil slope stability. Introduction to earthquakes, earthquake induced hazards, volcanicity, their effects and possible

mitigation measures Water, air and soil pollution

4. Course objectives

The objectives of the course are to:

Introduce the subject of engineering geology. Give a basic understanding of rock and soil mechanics, and rock-mass and soil-mass

engineering properties, and laboratory testing, as they relate to engineering projects Enable students to understand the importance of geology in site investigation and

characterisation in engineering projects Introduce natural geologic and human induced environmental hazards and possible remedial

measures.


Duration of the Course

The content of the course will be covered in one 15-week semester with three hours of instruction per week. Practicals will be arranged after covering the engineering properties of rocks and soils.

Mode of Instruction

Most of the instruction will be lecture-oriented but students will be encouraged to ask questions during the lecture

Practicals will be arranged to illustrate determination of properties of rocks and soils after which a report will be written for marking

Students will be free to seek help outside the Lecture room from the instructor and technicians at agreed times


There will be assignments at the end of each topic There will at least be two major tests

Assessment Pattern

The following instruments will be used to assess the extent of growth in skills, abilities and understanding acquired:

Requirements No. of units Contributiona) Testsb) Assignmentsc) Practicald) Final examinationa , b& cd

232

40%60%

Total 100%


Marks % Letter Grade Grade Point80 - 100 A 575 – 79.9 B+ 4.570 – 74.9 B 4.065 – 69.9 B- 3.560 –64.9 C+ 3.055 – 59.9 C 2.550 – 54.9 C- 2.045 – 49.9 D+ 1.540 – 44.9 D 1.035 – 39.9 D- 0.5Below 35 E 0

7. Reading List


Beavis, F.C. (1985): Engineering Geology: Blackwell.Bell, F.G. (1983): Fundamentals of Engineering Geology Bell, F.G. (1993): Engineering Geology: BlackwellBroomhead,E.N. (1986): The Stability of Slopes: Chapman and Hall.

Butterworth & Co.Craig, R.F. (1983): 3rd ed. Soil Mechanics, Van NostrandGSA (Engineering Div.) (1968): Engineering Geology Case Histories 6-10.

Hunt, R.E. (1984): Geotechnical Engineering Investigation Manual. McGraw Hill.

Legget, R.F. (1962): Geology and Engineering Mcgraw Hill.Legget, R.F. (ed).(1982): Reviews in Engineering. Geol. Vol.V. Geology Under Cities.Maclean and Gribble (1979): Geology for Engineers. George Allen & Unwin.Montgomery, C.W. (1989): Environmental GeologySmith, G.N. (1982): 5th ed. Elements of Soil Mechanics for Civil and Mining Engineers,

Granada

Useful notes: Lecture Notes by A. Muwanga

7.Course Outline


Engineering properties of geological materials

General, mechanics of soils, geotechnical significance of soils, mechanical properties of rocks, discontinuities and their engineering effects, engineering significance of rocks, weathering and engineering effects

Stages of site investigation

Objectives, stages of a site investigation; engineering geological maps, site investigation methods, subsurface investigations; geotechnical logging, sampling, field measurements, geophysical surveys


Water reservoirs and dams

Introduction, terminology and definitions; classification of dam types; forces acting on a dam; dam site investigation – geological assessment, geotechnical investigation, seismic assessment, field investigation: causes of dam failure; case histories.Transportation Routes

Introduction, geological requirements on the design of transportation routes, terrain evaluation for highway projectsBuilding foundations

Demand of structures on foundations, factors affecting performance of a foundationUnderground excavations - TunnelsIntroduction, terminology and definitions, types and uses of underground structures, site investigations for tunnels, geological conditions and tunnelling, water in tunnels.Rock slope stabilitySlope Terminology; causes of slope movements; engineering classification of slope movements; modes and causes of slope failures; basic mechanics of slope failure; methods of slope stabilisation.

Introduction to earthquakes, earthquake induced hazards, volcanicity, their effects and possible mitigation measures

Earthquake intensity and magnitude; effects of earthquakes; volcanic activity; beneficial and adverse effects; prediction of volcanic eruptions.

Water air and soil pollutionAtmospheric pollution: air pollutants – primary and secondary pollutants, pollutant transformation and removal.

Water pollution: sources of pollution, attenuation of pollution; water quality, monitoring groundwater quality

Soil pollution: introduction, sorption and retention of pollutants.


I. Engineering Properties of Geological Materials (3 weeks)

General, mechanics of soils Geotechnical significance of soils Mechanical properties of rocks Discontinuities and their engineering effects Engineering significance of rocks, Weathering and engineering effects

Practical 1&2

II. Stages of Site Investigation (3 weeks) Assignment 1

Objectives Stages of a site investigation Engineering geological maps Site investigation methods, subsurface investigations Geotechnical logging, Sampling


Field measurements Geophysical surveys

TEST 1

III. Water Reservoirs and Dams (11/2 weeks)

Introduction Terminology and definitions Classification of dam types; forces acting on a dam; Dam site investigation – geological assessment, geotechnical investigation, seismic

Assessment, field investigation Causes of dam failure Case histories

IV. Transportation Routes (1/2 week)

Introduction Geological requirements on the design of transportation routes Terrain evaluation for highway projects

V. Building Foundations (1/2 week)

Demand of structures on foundations factors affecting performance of a foundation

VI. Underground Excavations – Tunnels (11/2 weeks) Assignment 2

Introduction Terminology and definitions Types and uses of underground structures Site investigations for tunnel Geological conditions and tunnelling, water in tunnels.

VII. Rock Slope Stability (11/2 week)

Slope terminology causes of slope movements; engineering classification of slope movements modes and causes of slope failures basic mechanics of slope failure methods of slope stabilisation.

TEST 2

VII. Introduction to Earthquakes, Volcanicity, Environmental Effects and Possible Mitigation Measures ( 11/2 weeks) Assignment 3

Earthquake intensity and magnitude effects of earthquakes volcanic activity beneficial and adverse effects of volcanism prediction of volcanic eruptions.


VII. Water Air and Soil Pollution (2 weeks)

Atmospheric pollution: air pollutants – primary and secondary pollutants, pollutant transformation and removal.

Water pollution: sources of pollution, attenuation of pollution; water quality, monitoring groundwater quality

Soil pollution: introduction, sorption and retention of pollutants.


Regular attendance, do all assignments and tests

10. Responsibility of the Lecturer

Regular and punctual teaching, accurate and prompt grading of assignments, tests and examinations and available to students for consultation outside teaching hours.

Prospecting and Mining Geology

1. Course Name: Prospecting and Mining Geology2. Course Code: GLO 31063. Course Description

This course introduces students to exploration procedures for mineral deposits. It also covers methods as well, as tonnage and grade calculations for ores. In addition, different prospecting methods are covered. The students are also introduced to different mining and ore dressing methods and mineral economics.


Mineral exploration programme Exploration guides Mineral prospecting methods and sampling Mining methods Ore dressing Mineral economics



provide an understanding of some of the concepts necessary for mineral exploration discuss the various mineral prospecting methods give an overview on the different mining and ore dressing methods and emphasise the need to

work in a safe working environment introduce students to mining economics




The content of the course will be covered in one 15-week semester with two hours of instruction per week. Mode of Instruction

Most of the instruction will be lecture-oriented but students will be encouraged to ask questions during the lectures

Whenever possible, demonstrations will be made in the field during field excursions. Students will be free to seek help outside the Lecture room from the instructor and technicians

at agreed times There will be monthly assignments There will at least be two major tests

Assessment Pattern


Requirements No. of units Contributiona) Testsb) Assignmentsc) Final examinationa&bc

241

40%60%

Total 100%



7. Reading List


McKinstry H. E. (1962): Mining Geology; Prenctice HallLacy, W.C. (ed) (1983): Mining Geology; Hutchnison RossThomas, L. J. (1979): An Introduction to Mining; Robert BurtonPeters,W.C.(1987): Exploration and Mining Geology; J. Wiley

Lecture Notes by A. MuwangaLecture Notes in Mining and Engineering Geology by Hassan-el-Etr

7.Course Outline


Mineral Exploration programme

Introduction, definitions, the Sequential Exploration Model – discussion of the different stages

Exploration guides

Physiographic guides, structural guides, lithologic and stratigraphic guides, mineralogic guides, alteration

Mineral prospecting methods and sampling

Geologic mapping, geochemical prospecting, geophysical prospecting, sampling, tonnage and grade calculations

Mining methods

Factors affecting choice of a mining methodSurface mining - hydraulic mining, dredging, mineral sands mining, open pit mining, strip/contour mining, quarryingUnderground mining - with naturally supported openings, with artificially supported openings, caving methods, Solution mining and Mine safety

Ore dressing

Definitions, handpicking, gravity methods, magnetic methods, flotation, amalgamation, cyanidation, bio-leaching

Mineral economics

Ore reserves, ore values, profitability; life cycle of a mine.


I. Mineral Exploration programme 2 weeks

Introduction Definitions The Sequential Exploration Model – discussion of the different stages

II. Exploration guides 2 weeks Assignment 1

Physiographic guides Structural guides Lithologic and stratigraphic guides Mineralogic guides Alteration

III. Mineral prospecting methods and sampling 4 weeks Assignment 2

Geologic mapping Geochemical prospecting Geophysical prospecting Sampling


Tonnage and grade calculations

TEST 1

IV. Mining methods 3 weeks Assignment 3

Factors affecting choice of a mining method Surface mining - hydraulic mining, dredging, mineral sands mining, open pit mining, strip/contour

mining, quarrying Underground mining - with naturally supported openings, with artificially supported openings,

caving methods Solution mining Mine safety

V. Ore dressing 2 weeks

Handpicking Gravity methods Magnetic methods Flotation Amalgamation Cyanidation Bio-leaching

TEST 2VI. Mineral economics 2 weeks Assignment 4

Ore reserves Ore value Profitability Life cycle of a mine.

TEST 2





Mineral Exploration and Mining Methods

1. Course Name: Mineral Exploration and Mining Methods

2. Course Code: GRM 2102


The course introduces mineral exploration and mining methods. It focuses on the exploration of ore

deposits from desk studies up to harnessing of the mineral deposit. The various methods of exploration are

treated in detail. Methods of sampling of ore, grade and tonnage calculations are also tackled, culminating

into the various mining methods and examples of classic ore deposits world-over.



Stages of Mineral Exploration

Feasibility Studies

Mineral Exploration Methods

Sampling of Ore, Grade and Tonnage Calculations

Mineral Economics

Mining Methods and Effect on Environment


The course objectives are:

To inculcate knowledge of mineral exploration to the students which is the mainstay of any

Geologist searching for mineral resources.

To acquire skills of carrying out feasibility studies which eliminate unviable economic

deposits and qualify viable ones.

To learn to quantify the ore deposits.

To introduce methods of projecting profitability in mining ventures and search for mineral

markets.

To identify the different mining methods and their environmental impacts.


Duration of Course

The course is taught to the second year students in one 15-week semester. It is a 3 credit unit course. It

involves 2 hours of lectures and 1 contact hour for practicals per week.

Mode of Instruction

By lectures and use of wall charts for the various ore minerals.

Citation of case studies of exploration of some classical mineral deposits.

Lecturer asks questions or for students’ opinion during the lectures in order to incite them into

active participation.

After the preliminary lectures, the students start embarking on the practicals during the third

week. These involve the various ore mineral collections in the Department.

Students are taken out of the lecture rooms to demonstrate the various stages of mineral

exploration.

Time is spent in the geochemistry laboratory to learn the assay methods.

The practicals and assay results are assessed.

Students are given assignments after every major topic.

Students sit a course test after the eighth and fifteenth weeks.


The students spend 21/2 weeks in the field during the recess term.

Assessment Pattern

The students will be assessed a follows:


a) Practicals 12

b) Assignments 4

c) Tests 2 a-c 40%

d) Final Examination 60%

Total 100%

All the scores will then be converted to letter grades as follows:

Marks % Letter Grade Grade Point

80-101 A 575-79.10 B+ 4.570-74.10 B 4.065-69.10 B- 3.560-64.10 C+ 3.055-59.10 C 2.550-54.10 C- 2.045-49.10 D+ 1.540-44.10 D 1.035-39.10 D- 0.5Below 35 E 0

6. Reading List

Evans, A.M., 2000. Ore Geology and Industrial Minerals, An Introduction; Blackwell

Science.

Kreiter, V.M., 1968. Geological Prospecting and Exploration; Mir Publishers.

Lacy, W.C. 1983. Mining Geology; Hutchinson Ross Publishing Co.

Peters, W.C. 1987. Exploration and Mining Geology, 2nd Edition; John Wiley and Sons.

Rose, A.W., Hawkes, H.E. and Webb, J.S., 1979. Geochemistry in Mineral Exploration, 2nd

Edition; Academic Press.

de Smeth, 1990. Exploration Geochemistry, ITC, Delft, The Netherlands.

Thomas, L.J., 1979. An introduction to Mining; Metheum of Australia.

Westerhof, A.B., 1992. An Introduction to Exploration Design and Strategy, ITC, Delft, The

Netherlands.

Barifaijo, E. 2004. Lecturer Notes.

7. Course Outline

Stages of Mineral Exploration


History of mineral exploration, ore, gangue and industrial minerals, sequential exploration model (desk

studies, area selection, target generation, prospect generation, sizing prospects, evaluation).

Feasibility Studies

Planning (external factors and socio-economic controls), External factors (mining method, transportation of

mineral commodities, availability of infrastructure, labour, environmental concerns and climate), socio-

economic factors (political stability, environmental pollution and Government controls e.g. taxes,

compensation etc., trade unions). Evaluation of reserves and metallurgical tests, market studies and

operating costs.

Mineral Exploration Methods

These will dwell essentially on geochemical methods as geophysical methods will be covered in course

GRM 2203.

Overview of geochemical exploration, geochemical anomalies, concentration factor, geochemical cycle,

pathfinder elements, Clarke’s average abundance of elements in the earth’s crust, lithogeochemical surveys,

soil geochemistry, biogeochemistry, geobotany, stream sediment geochemistry, heavy minerals in

exploration, geochemical maps, hydrogeochemistry.

Sampling of Ore, Tonnage and Grade Calculations

Channel sampling, chip sampling, muck sampling, car sampling, pitting, trenching, auger drilling, banka

drilling and diamond drilling, Assaying, grade, volume and tonnage calculations.

Mineral Economics

Ore values, recoverable value of a mineral commodity, estimating profitability.

Mining Methods

General terminologies used in mining, underground mining methods (sublevel mining, longhole open

stoping, shrinkage stoping, cut and fill stoping, block caving, room and pillar mining), surface mining

(open cast, strip, solution, and in-situ leaching) mining methods, factors affecting the selection of mining

methods.


I. Stages of Mineral Exploration (3 weeks) Assignment 1

History of mineral exploration

Ore, gangue and industrial minerals

Sequential exploration model (desk studies, area selection, target generation, prospect

generation, sizing prospects, evaluation).


II. Feasibility Studies (2 weeks)

Planning (external factors and socio-economic controls)

External factors (mining method, transportation of mineral commodities, availability of

infrastructure, labour, environmental concerns and climate)

Socio-economic factors (political stability, environmental pollution and Government controls

e.g. taxes, compensation etc., trade unions).

Evaluation of reserves and metallurgical tests

Market studies and operating costs

III. Mineral Exploration Methods (3 weeks) Assignment 2

Overview of geochemical exploration

Geochemical anomalies

Concentration factor, geochemical cycle

Pathfinder elements

Clarke’s average abundance of elements in the earth’s crust

Lithogeochemical surveys

Soil geochemistry

Biogeochemistry

Geobotany

Stream sediment geochemistry

Heavy minerals in exploration

Geochemical maps

Hydrogeochemistry

IV. Sampling of Ore, Grade and Tonnage Calculations (2 weeks)

Channel sampling

Chip sampling

Muck sampling

Car sampling

Pitting

Trenching

Auger drilling

Banka drilling

Diamond drilling

Assaying

Grade, volume and tonnage calculations


V. Mineral Economics (2 weeks) Assignment 3

Ore values

Recoverable value of a mineral commodity

Estimating profitability

VI. Mining Methods and Effect on Environment (3 weeks) Assignment 4

General terminologies used in mining

Underground mining methods (sublevel mining, longhole open stoping, shrinkage stoping, cut

and fill stoping, block caving, room and pillar mining)

Surface mining (open cast, strip, solution, and in-situ leaching)

Mining methods

Factors affecting the selection of mining methods

Practicals will be continuous from week 3 up to week 15.


Regular attendance, do all the assignments, practicals, attend all the field demonstrations participate in field

excursions and write field reports.





Groundwater Dynamics1. Course Name: Groundwater Dynamics



This is an introductory course on the dynamics of groundwater. It introduces students to the significance of groundwater in the hydrological cycle; recharge mechanisms, basic groundwater concepts, hydrogeological environments, natural regional flow with analytical and graphical solutions. It finally looks at well hydraulics during groundwater flow to pumped wells.

The course is divided into the following four major topics: Groundwater in the hydrological cycle Hydrogeological environments Groundwater Flow Well Hydraulics



The objectives of the course are: To understand the importance of groundwater and its position in the hydrological cycle. To know and discuss the basic groundwater concepts. To describe and demonstrate the different hydrogeological environments. To solve and apply regional groundwater flow problems. To discuss and interpret hydraulics of groundwater flow to pumped wells.





instructor, other geology instructors, library, references, or the web/internet. There will be fortnightly assignments. There will be at least two major homework assignments and two tests. There will be weekly practical sessions.





6. Reading List


Domenico, P. A. and Schwartz, F. W. (1998). Physical and Chemical Hydrogeology (2nd Edn.). John Wiley & Sons, Inc., New York. 506p.

Driscoll, F.G. (1989). Groundwater and Wells (Second Edition). Johnson Filtration Systems Inc., Minnesota. 1089p.


Fetter, C.W., 2001. Applied Hydrogeology (4th Edn.). MacMillan, New York, NY. Hamill, L and Bell, F.G. (1986). Groundwater Resource Development. Butterworths, London.

344p. Hudak, P.F. (2000). Principles of Hydrogeology (2nd Edn.). Lewis Publishers, Boca Raton, USA.

204p. Kearey, P. and Brooks, M. (1984). An Introduction to Geophysical Exploration. Blackwell

Scientific Publications, Oxford. 296p. Kruseman, G.P. and Ridder, N.A. (1970). Analysis and evaluation of pump test data. International

Institute for Land Reclamation and Improvement (ILRI), Wageningen, 1970. Bulletin 11. MacDonald, A., Davies, J, Calow, R. and Chilton, J. (2005). Developing Groundwater: A guide

for Rural Water Supply. ITDG Publishing. 358p. Todd, D.K. (1976). Groundwater Hydrology (2nd Edn.). John Wiley & Sons, New York.

535p. USEFUL NOTES: M. Owor Lecture Notes.

7. Course Outline

IntroductionWhy Study Groundwater, Groundwater In Hydrological Cycle. The Origin of water, Recharge.

Groundwater Basics

Aquifer Types, Water Table Definitions, Aquifer Parameters, Aquifer Properties, Physics Review, Sedimentology Review, Hydrology Review, Darcy's Law, Darcy Experiment, Head, Rock Properties.

Hydrogeological EnvironmentsCrystalline Basement Rocks, Consolidated Sedimentary Aquifers, Unconsolidated Sedimentary Aquifers, Volcanic Terrains.

Regional Flow And Flow Nets

Vertical Averaging, Flow Equation, Flow Nets.

Well HydraulicsRadial Flow, Steady Confined Flow, Transient Confined Flow, Non-Ideal Aquifers, Single Well Tests, Designing Well Tests, Summary.


I. Introduction [2 Weeks] Assignment 1

Why Study Groundwater Groundwater In Hydrological Cycle The Origin of water, Recharge


II. Groundwater Basics [2-3 Weeks] Assignment 2

Aquifer Types Water Table Definitions Aquifer Parameters Aquifer Properties Physics Review Sedimentology Review Hydrology Review Darcy's Law Darcy Experiment Head Rock Properties

III. Hydrogeological Environments [3 Weeks] Assignment 3

Crystalline Basement Rocks Consolidated Sedimentary Aquifers Unconsolidated Sedimentary Aquifers Volcanic Terrains.

TEST 1

IV. Regional Flow And Flow Nets [3 Weeks] Assignment 4

Vertical Averaging Flow Equation Flow Nets

V. Well Hydraulics [3 Weeks] Assignment 5

Radial Flow Steady Confined Flow Transient Confined Flow Non-Ideal Aquifers Single Well Tests Designing Well Tests Summary

TEST 2






Minerals of Uganda

1. Course Name: Minerals of Uganda



The course teaches all the ore, industrial minerals and economically viable rocks that exist in Uganda. It

also touches on the geological setting in which the minerals are found. The contribution of these minerals

to the economy of Uganda is emphasized.

The course in divided into parts I and II.

Part I handles the general aspects of the mineral sector in Uganda.

Part II deals with the ore, industrial minerals and commercial rocks found in Uganda.


Brief on the Geology and Metallogeny of Uganda

Chronology of Mining in Uganda

Mineral Rights, Licensing Procedures, Mining Act and Mineral Policy of Uganda

Industrial Minerals and Rocks in Uganda


To introduce the geology of Uganda and its containment of the mineral resources.

To enlighten on the institutional framework and legislation of the mineral sector in Uganda.

To make inference on the ore, industrial minerals and rocks found in Uganda

To lay emphasis on the contribution of the minerals to the economy of Uganda.


Duration of Course

The course is taught to the second year students in one 15-week semester. It is a 2 credit unit course. It

involves two hours of lectures per week.

Mode of Instruction

By lectures and use of the mineral map of Uganda.

Use is made of the showcases containing the various economic minerals and rocks of Uganda.

Students are given assignments after completion of each major topic.

Students sit a course test during the 8th week and 15th week of the semester.

Half-day visit to the Geological Survey and Mines Department to acquaint the students with

their operations.


Field excursion and project during the recess term.

Assessment Pattern

The students will be assessed as follows:


a) Assignments 4 a-b 40%

b) Tests 2

c) Final Examination 60%

Total 100%

All the scores will be converted to letter grades as follows:


80-102 A 575-79.11 B+ 4.570-74.11 B 4.065-69.11 B- 3.560-64.11 C+ 3.055-59.11 C 2.550-54.11 C- 2.045-49.11 D+ 1.540-44.11 D 1.035-39.11 D- 0.5Below 35 E 0

6. Reading List

Barifaijo, E. and Kabanda, F. 2001. Mining and current mineral target areas of Uganda;

Documenta Naturae No. 136.

Barnes, J.W. 1961. The mineral resources of Uganda; Geological Survey and Mines

Department.

Hester, B.W. and Boberg, W., 1996. Uganda Opportunities for Mining Investment.

Mboijana, S.A., Odida, J., Watuwa Bwobi, Tuhumwire, J.T. and Katto, E., 1998. Proceedings

of the symposium on investment in the Mining Sector in Uganda; Geological Survey and

Mines Department.

Migisha, C.J.R. and Konishi, K., 1995. The genesis of the Hima limestone deposit, SW

Uganda; Berliner Geowiss, Abh., A175.

Prast, B., Scott, A. and Forrest, M., 1996. Uganda renaissance in mining, country

supplement; Mining Journal Ltd, London, UK.

Barifaijo, E., 2004, Lecture notes part 1

Barifaijo, E., 2004, Lecture notes part II.

7. Course Outline


Brief on the Geology and Metallogeny of Uganda

Archaean (Basement Complex, Nyanzian-Kivirondian system) geology, Proterozoic geology (Buganda-

Toro, Karagwe-Ankolean, Bukoban, Karoo and Mozambiquean systems), Western Rift System,

metallogeny.

Chronology of Mining in Uganda

History of mining in Uganda, Future prospects in minerals and mineral-related investment, geological data

bases, role of the Department of Geological Survey and Mines.

Mineral Rights, Licensing Procedures, Mining Act and Mineral Policy of Uganda

Mineral Rights, Mining Rights, Possession, Purchase and Sale of Minerals, other mineral related licences

(Blaster’s certificate, Water permits and rights), licence procedures, Mining Act, 2003 and Mineral Policy

of Uganda.

Ore Minerals of Uganda

Base metals and ferroalloys, cobaltiferous pyrites, precious metals, chromium, nickel, tin, tungsten and

pegmatite minerals.

Industrial Minerals and Rocks of Uganda

Industrial minerals and rocks and their geological provinces, carbonatites, sedimentary carbonate rocks,

clays, phosphates, feldspars, kaolin, rock salt, gypsum, talc, silica sand, vermiculite, dimension stone, sand,

volcanic rocks, gemstone potential.


i) Brief on the geology and metallogeny of Uganda (2 weeks)

Archaean (Basement Complex, Nyanzian-Kivirondian system) geology

Proterozoic geology (Buganda-Toro, Karagwe-Ankolean, Bukoban, Karoo and

Mozambiquean systems)

Western Rift System, metallogeny

ii) Chronology of Mining in Uganda (2weeks) Assignment 1

History of mining in Uganda

Future prospects in minerals and mineral-related investment

Geological data bases

Role of the Department of Geological Survey and Mines


iii) Mineral Rights, Licensing Procedures,

Mining Act and Mineral Policy of Uganda (5weeks) Assignment 2

Mineral Rights

Mining Rights

Possession, Purchase and Sale of Minerals

Other mineral related licences (Blaster’s certificate, Water permits and rights)

Licence procedures

Mining Act, 2003

Mineral Policy of Uganda

Test 1

iv) Ore minerals of Uganda (3 weeks) Assignment 3

Base metals and ferroalloys

Cobaltiferous pyrites

Precious metals

Chromium

Nickel

Tin

Tungsten

Pegmatite minerals

v) Industrial Minerals and Rocks of Uganda (3weeks) Assignment 4

Industrial minerals and rocks and their geological provinces

Carbonatites

Sedimentary carbonate rocks

Clays

Phosphates

Feldspars

Kaolin

Rock salt

Gypsum talc

Silica sand

Vermiculate

Dimension stone

Sand

Volcanic rocks

Gemstone potential


Test 2


Regular attendance, do all the assignments, practicals, attend all the field demonstrations participate in field

excursions and write field reports.





Well Construction and Monitoring1. Course Name: Well Construction and Monitoring



This is an introductory course on well construction and monitoring. It introduces various methods for accessing groundwater. It also covers analytical methods for minimising aquifer and well losses from pumped water wells. It provides different well designs, construction (shallow and deep wells) and maintenance methods. In addition spring construction and protection are illustrated. Groundwater monitoring and development techniques are also studied. Finally, the roles and responsibilities of the service providers and the community are treated.

The course is divided into the following four major topics: Water Well Design Water Source Construction and Maintenance Groundwater Monitoring and Development Roles and Responsibilities


The objectives of the course are: To understand and assess the appropriate water well designs for efficient water abstraction. To assess the main well construction and maintenance methods. To identify the proper spring construction and protection methods. To use and apply the groundwater monitoring methods and development concepts. To know and discuss the roles and responsibilities of the technical and community.











6. Reading List





USA. 204p. MacDonald, A., Davies, J, Calow, R. and Chilton, J. (2005). Developing Groundwater: A guide

for Rural Water Supply. ITDG Publishing. 358p. Todd, D.K., (1976). Groundwater Hydrology (2nd Edn.). John Wiley & Sons, New York. 535p. USEFUL NOTES: M. Owor Lecture Notes.

7. Course Outline


Accessing GroundwaterSprings, Hand-dug Wells, Boreholes, Collector Wells, Qanat, Infiltration Galleries.

Water WellsExploration & Exploitation wells, Well fields, Aquifer & Well losses, Efficiency.

Well DesignCasing section, Screen section, Gravel pack, Sand trap, Grouting & Sealing, Typical Borehole designs, Pumps, Design Optimisation.

Well Construction & MaintenanceWell Construction Methods (Shallow, Deep, Other Designs), Well Development, Maintenance, and Abandonment.

SpringsHydrogeological Context, Construction.

Groundwater Monitoring and DevelopmentGroundwater Monitoring, Regional Groundwater Development.

Roles and ResponsibilitiesHydrogeologist/Project Engineer, Relationships with Community, Data Collection.


I. Accessing Groundwater [1-2 Weeks]

Springs Hand-dug Wells Boreholes Collector Wells Qanat Infiltration Galleries

II. Water Wells [2 Weeks] Assignment 1

Exploration & Exploitation wells Well fields Aquifer & Well losses Efficiency

III. Well Design [3 Weeks] Assignment 2

Casing section


Screen section Gravel pack Sand trap Grouting & Sealing Typical Borehole designs Pumps Design Optimisation.

TEST 1

IV. Well Construction & Maintenance [3 Weeks] Assignment 3

Well Construction Methods (Shallow, Deep, Other Designs) Well Development Maintenance Abandonment

V. Springs [2 Weeks] Assignment 4

Hydrogeological Context Construction

VI. Groundwater Monitoring and Development [2 Weeks] Assignment 5

Groundwater Monitoring Regional Groundwater Development

VII. Roles and Responsibilities [1 Week] Assignment 6

Hydrogeologist/Project Engineer Relationships with Community Data Collection

TEST 2





Water Quality and Instrumentation1. Course Name: Water Quality and Instrumentation




This is an introductory course on groundwater quality and instrumentation. Basic aspects of groundwater chemistry are reviewed, followed by the quality components. Groundwater sampling, laboratory analyses, and quality control methods together with quality standards are practically assessed. The necessary field and laboratory instrumentation are also considered. It also covers basic solute transport mechanisms by groundwater. Finally, it treats introductory groundwater chemical pollution sources and remedial measures.

The course is divided into the following four major topics: Groundwater Chemistry and Quality Components Groundwater Sampling and Instrumentation Solute Transport Groundwater Pollution


The objectives of the course are: To understand the chemistry of groundwater and its quality components. To describe and demonstrate the groundwater sampling methods. To appreciate the principles and apply groundwater field and laboratory instrumentation. To discuss and interpret solute transport problems. To assess and map out groundwater pollution sources and plumes.









Marks (%) Letter Grade Grade Point80 – 100 A 575 – 79.9 B+ 4.570- 74.9 B 4.065 – 69.9 B- 3.5


60 – 64.9 C 3.055 – 59.9 C 2.550 – 54.9 C 2.045 – 49.9 D 1.540 – 44.9 D 1.035 – 39.9 D 0.5Below 35 E 0

6. Reading List


Domenico, P. A. and Schwartz, F. W. (1998). Physical and Chemical Hydrogeology (2nd Edn.). John Wiley & Sons, Inc., New York. 506p.




USA. 204p. MacDonald, A., Davies, J, Calow, R. and Chilton, J. (2005). Developing Groundwater: A guide

for Rural Water Supply. ITDG Publishing. 358p. Todd, D.K., (1976). Groundwater Hydrology (2nd Edn.). John Wiley & Sons, New York. 535p. USEFUL NOTES: M. Owor Lecture Notes.

7. Course Outline

Groundwater ChemistryGroundwater And Surface Water, Groundwater Quality, Basic Principles, Major Ion Chemistry, Applications Of Major Ion Chemistry , Isotope Hydrology

Quality Components Of GroundwaterElectrical Conductance And TDS, Water Quality Standards, Drinking Water

Groundwater SamplingSampling Methods, Result Reliability, Monitoring Frequency, Sample Identity, Laboratory Procedures, Analytical Techniques

Solute TransportTransport Mechanisms

Groundwater Pollution

Natural Causes Of Salination, Unnatural Causes Of Pollution, Examples: Contamination And Remediation


I. Groundwater Chemistry [3 Weeks] Assignment 1

Groundwater And Surface WaterGroundwater Quality


Basic PrinciplesMajor Ion ChemistryApplications Of Major Ion Chemistry Isotope Hydrology

II. Quality Components Of Groundwater [3 Weeks] Assignment 2

Electrical Conductance And TDSWater Quality StandardsDrinking Water

III. Groundwater Sampling [3-4 Weeks] Assignment 3

Sampling MethodsResult ReliabilityMonitoring FrequencySample IdentityLaboratory ProceduresAnalytical Techniques

TEST 1

IV. Solute Transport [2 Weeks] Assignment 4

Transport Mechanisms

V. Groundwater Pollution [3 Weeks] Assignment 5

Natural Causes Of SalinationUnnatural Causes Of PollutionExamples: Contamination And Remediation

TEST 2





Surface Hydrology1. Course Name: Surface Hydrology2. Course Code: GRM 11023. Course Description

This course introduces students to the basic components of surface hydrology including the components of the hydrological cycle. These are further discussed in detail including evapotranspiration, precipitation, interception, run off and stream flow. Attention is paid to techniques for the measurement and collection of data on the different components. The course


also covers hydrographs and their applications in hydraulic engineering for river structures and planning and management of water resources. Water balance is discussed and at the end an overview of the hydrological conditions in Africa is given.


The hydrological cycle Evapotranspiration Precipitation Runoff and hydrographs Streams and stream flow Water balance Hydrological conditions in Africa



Introduce the basic components of the hydrological cycle. Give a detailed account of the different components (evapotranspiration, precipitation,

interception, run off and stream flow including techniques for their measurements. Introduce hydrographs and highlight how they can be applied to hydraulic engineering and

water resource management. Discuss the water balance model. Give an overview of the hydrological conditions in Africa.



The content of the course will be covered in one 15-week semester with three hours of instruction per week..

Mode of Instruction

Most of the instruction will classroom based and students will be encouraged to ask questions during the lecture.

Whenever possible, demonstrations will be made in the field during field excursions. Students will be free to seek help outside the Lecture room from the instructor. There will monthly be assignments. There will at least be two major tests

Assessment Pattern


Requirements No. of units Contributiona) Testsb) Assignmentsc) Final examinationa & b

241

40%


c 60%Total 100%



7. Reading List


Todd, D.K. (1980): Groundwater Hydrology, J. WileyHamill, L. & Bell, F.G. (1986): Groundwater Resources DevelopmentFetter, C. W. (1994): Applied Hydrogeology, Prentice HallRichard, J.C. (1969): Introduction to Physical HydrologyBalek, J. (1983): Development in Water Sciences 18: Hydrology and Water Resources in Tropical Regions, ElsevierUNESCO (1978): Studies and Reports in Hydrology 25: World Water Balance and Water Resources of the Earth

Lecture Notes by A. Muwanga

7.Course Outline

The hydrological cycle

Definitions, the hydrological cycle, components, reservoirs

Evapotranspiration

Evaporation, transpiration, evapotranspiration , factors affecting evapotranspiration ; movement of water during evapotranspiration, measurement of evaporation/evapotranspiration, estimation of evaporation/evapotranspiration by calculation

Precipitation

Overview, forms of precipitation, formation of precipitation, types of precipitation , measurement of precipitation - areal precipitation, areal analysis of precipitation data; rainfall Intensity, interception

Runoff and hydrographs

Channel precipitation, depression storage, infiltration, overland flow, shallow subsurface storm flow, groundwater flow ; Hydrographs , hydrograph shape, the Unit Hydrograph, duration curves and their practical applications.


Streams and stream flow

Stream gauging, discharge measurement, rating curve

Water balance

The water balance equation, discussion of components

Hydrological conditions in Africa

Precipitation, evapotranspiration, runoff and river discharges – discharges in the different river basins


I. The hydrological cycle (1 week)

Definitions The hydrological cycle Components Reservoirs

II. Evapotranspiration (3 weeks) Assignment 1

Evaporation Transpiration Evapotranspiration

o Factors affecting evapotranspirationo Movement of water during evapotranspirationo Measurement of evaporation/evapotranspirationo Estimation of evaporation/evapotranspiration by calculation

TEST 1

III. Precipitation ( 2 weeks) Assignment 2

Overview Forms of precipitation Formation of precipitation, Types of precipitation Measurement of precipitation

o Areal precipitationo Areal analysis of precipitation datao Rainfall Intensity, interception

IV. Runoff and hydrographs (3 weeks) Assignment 3

Channel precipitation Depression storage Infiltration Overland flow Shallow subsurface storm flow, Groundwater flow

o Hydrographso Hydrograph shapeo The Unit Hydrograph,


o Duration curves and their practical applications.

V. Streams and stream flow (2 weeks)

Stream gauging Discharge measurement Rating curve

VI. Water balance (1 week)

The water balance equation Discussion of components

TEST 2

VII. Hydrological conditions in Africa (3 weeks) Assignment 4

Precipitation Evapotranspiration Runoff and river discharges Discharges in the different river basins

o The Nile basino The Congo basino The Niger basino The Zambezi basin





Industrial Minerals

1. Course Name: Industrial Minerals

2. Course code: GRM 1202

3. Course Description: The course basically tries to elucidate geological/industrial materials in Uganda (eg. rocks, mineral liquid and gas) which are obtained by mining (in its broadest sense) and represents non-metallic, non-fuel raw materials of commercial value. These include, limestone, rock salt, phosphate, clays, vermiculite, etc. The course is divided into the following major topics:

o Introduction to industrial mineralso Place and valueo Industrial minerals and national economyo Creation of market through political resources o Industrial mineral resources in Ugandao Potential of Ugandan raw materials



To acquire knowledge on what industrial minerals are, their uses, and location. How to extract these industrial minerals in an environment friendly way. Possible marketing of these materials.

5. Teaching and Assessment pattern

Duration of courseThe content of the course will be covered in one 15-week academic semester with 2 hours of instruction per week.

Mode of instruction Most of the instructions will be lecture-oriented, but students can still interrupt the

instructor and ask some questions Students are encouraged to seek external help from libraries, fellow students,

etc. There will be two major assignments and two tests.

6. Assessment Pattern

The following instruments will be used to assess the extent of growth in skills, abilities, and understanding required

Requirements No of units contributionTests (2) 30%Assignments (2) 10%Final examination (1) 60%


Marks % Letter grade Grade point80-100 A 5.075-79.9 B+ 4.570-74.9 B 4.065-69.9 B- 3.560-64.9 C+ 3.055-59.9 C 2.550-54.9 C- 2.045-49.9 D+ 1.540-44.9 D 1.035-39.9 D- 0.5

7. Reading List

Manning, D.A.C, (1995). Introduction to industrial minerals. Chapman and hall, 278P.

Katto, E, (1997). Industrial mineral resources and their development for the 21st

century; Proceedings of the symposium on investment opportunities in the mining sector in Uganda, P77-88.

Kyagulanyi, D. (1997). The potential for a dimension stone industry in Uganda. Proceedings of the symposium on investment opportunities in the mining sector in Uganda P89-94


8. Course Outline

Introduction to industrial minerals Place and value Industrial minerals and national economy Creation of market through political resources Industrial mineral resources in Uganda Potential of Ugandan raw materials


Introduction to industrial minerals (2 weeks)

Place and value (1 weeks)

Industrial minerals and national economy (1 weeks)

Creation of market through political resources (3 weeks) (Assign I & Test I) Industrial mineral resources in Uganda (5 weeks)

Potential of Ugandan raw materials (3 weeks) (Assign II & Test II)

10. Responsibilities of the Student

Regular attendance of the course lectures, do all assignments and tests, acquire more literature about the subject through the media, journals, reports, etc

11. Responsibilities of the Course Lecturer Regular and punctual teaching Proper and accurate grading of assignments, tests and exams His/her availability to assist students after formal lectures

Classification and Geotechnical Properties of Rocks and Soils

1. Course Name: Classification and Geotechnical Properties of Rocks and Soils2. Course Code: GRM 12063. Course Description

This is a basic course introducing students to classification and geotechnical properties of geological materials. It covers mechanical properties of rocks and soils and factors that control them and how they affect engineering structures and design. It also introduces the concept of rock mass rating. It also includes weathering and its implications on rock strength.

The course is divided into the following major topics: Origin and deposition of soils Introduction to soil mechanics Geotechnical significance of soils Mechanical properties of rocks Rock mass classification Weathering




Recognise the difference between geological and geotechnical classification of geologic materials

Introduce the basic properties of geologic materials Recognise the geotechnical significance of rocks and soils in civil engineering Lay a foundation for advanced courses dealing with civil engineering projects.



The content of the course will be covered in one 15-week semester with two hours of instruction per week plus at least three practical sessions.

Mode of Instruction

Most of the instruction will be lecture-oriented but students will be encouraged to ask questions during the lecture

Practicals will be arranged demonstrate some mechanical properties of soils and rooks, and a report will be written and marked.



Assessment Pattern


Requirements No. of units Contributiona) Testsb) Assignmentsc) Practicalsd) Final examinationa, b & cd

2321

40%60%

Total 100%




7. Reading List


Bell, F.G. (1983): Fundamentals of Engineering Geology. ButterworthsBell, F.G. (1993): Engineering Geology. BlackwellGoodman, P. (1976); Methods of Geological EngineeringHarvey, J. C. (1981): Geology for Geotechnical Engineers, Cambridge

Smith, G.N. (1982): Elements of Soil Mechanics for Civil and Mining Engineers. Granada


7.Course Outline

Origin and deposition of soils

Formation of soils – physical processes, chemical processes, soil formation methods, soils profiles

Introduction to soils mechanics

Basic and index properties of soils, engineering description and classification of soils – soil particles, plasticity and consistency limits, classification systemsPractical

Geotechnical significance of soils

Engineering behaviour of: granular soils, silts, clays, tropical soils

Mechanical properties of rocks

Rock material description, index and engineering properties, factors controlling mechanical behaviour of rocksPractical

Rock mass classification

Principles, classification based on intact rock; classification based on rock mass, rating concept

Weathering

Weathering grades for rock materialsScale of weathering grades of rock masses


I. Origin and deposition of soils (2weeks)

Formation of soils – physical processes, chemical processes, soil formation methods, soils profiles

II. Introduction to soil mechanics (4 weeks) Assignment 1

Basic and index properties of soils


Engineering description and classification of soils – soil particles, plasticity and consistency limits

Classification systems Practical 1 (1 week)

III. Geotechnical significance of soils (2 weeks)

Engineering behaviour of: granular soils, silts, clays, tropical soils

TEST 1

IV) Mechanical properties of rocks (2 weeks) Assignment 2

Rock material description Index and engineering properties, Factors controlling mechanical behaviour of rocks Practical 1 (1 week)

V) Rock mass classification (3 weeks) Assignment 3

Principles Classification based on intact rock Classification based on rock mass Rating concept

TEST 2.





Site Investigations for Engineering Structures

1. Course Name: Site Investigations for Engineering Structures2. Course Code: GRM 21053. Course Description

This course introduces students to geological requirements for site investigations for engineering structures. It covers organisation and design of site investigation as well as techniques of mapping and sub-surface explorations. It also tackles geotechnical testing as well as what is required for a site investigation report.


Organisation and design of a site investigation Investigation methods and procedures Sampling Testing techniques Land classification and terrain evaluation Site investigation report writing




Provide skills in planning and design of a site investigation Equip students with knowledge on ythe various exploration techniques in site investigation Introduce students to writing site investigation reports



The content of the course will be covered in one 15-week semester with three hours of instruction per week.

Mode of Instruction



at agreed times There will be monthly assignments. There will at least be two major tests

Assessment Pattern


Requirements No. of units Contributiona) Testsb) Assignmentsc) Final examinationa & bc

241

40%60%

Total 100%




7. Reading List


Hunt, H.E. (1984): Geotecnical Engineering Investigation Manual. McGraw HillBell, F.G. (1993): Engineering Geology, BlackwellHarvey, J. C. (1981): Geology for Geotechnical Engineers, CambridgeGoodman, P. (1976); Methods of Geological EngineeringLecture Notes by A. Muwanga

7.Course Outline

Organisation and design of a site investigation

Introduction, human activities and the geologic interface, objectives, stages, scope and planning of site investigations, phases of site investigation,

Investigation methods and procedures

Exploration - surface mapping, site reconnaissanceSub-surface exploration - exploration methods, reconnaissance methodsEngineering geological maps

Sampling techniques

Test and core borings - drilling terminology, dry drilling, drilling with circulatory fluids, borehole remote sensing and logging, groundwater and seepage detection, extraction and storage of core, recovery of soil samples and cores, data presentation Testing techniques

Measurement of properties Laboratory testing – basic and index properties – intact rock – hardness, durability tests; rock masses – rippability, shear strengthHydraulic properties In situ testing – direct shear strength, in situ compression test, plate loading testField instrumentation – surface movements, in situ pressures and stresses, pore water pressures

Land classification and terrain evaluation

Land elements, land facets, land systems

Site Investigation reports

Introduction , report content,



I. Organisation and design of a site investigation (4 weeks) Assignment 1

Introduction Human activities and the geologic interface Objectives, stages, scope and planning of site investigations Phases of site investigation

II. Investigation methods and procedures (2 weeks)

Exploration - surface mapping, site reconnaissance Sub-surface exploration - exploration methods, reconnaissance methods Engineering geological maps

TEST 1

III. Sampling techniques (3 weeks) Assignment 2

Test and core borings - drilling terminology, dry drilling, drilling with circulatory fluids, Brehole remote sensing and logging Groundwater and seepage detection Extraction and storage of core Recovery of soil samples and cores Data presentation

IV. Testing techniques (3 weeks) Assignment 3

Measurement of properties Laboratory testing – basic and index properties – intact rock – hardness, durability tests; rock

masses – rippability, shear strength Hydraulic properties In situ testing – direct shear strength, in situ compression test, plate loading test Field instrumentation – surface movements, in situ pressures and stresses, pore water pressures

V. Land classification and terrain evaluation (11/2weeks)

Land elements, land facets, land systems

TEST 2

VI. Site Investigation reports 11/2weeks) Assignment 4

Introduction , report content






Materials for construction and Building1. Course Name: Materials for construction and Building

2. Course code: GRM 2202

3. Course Description:

The course generally defines the building and construction materials used by man, his involvement with all aspects of the mineral industry i.e. from extraction to utilization. It introduces students fundamental aspects of identification of geologic origin and distribution of earth materials. This includes physical classification and interpretation of the processes of emplacement and modifications. The course is divided into the following major topics:

Introduction to building materials. Influence of geology on foundation design. Engineering properties of soils Soil mechanics

Course Objectives

o Introduce the building and construction materialso Give a basic understanding on how geology interacts with other science disciplines to

assure the best product quality.o Enable students to understand the importance of geology in site investigation and characterization

in engineering projects

Teaching and Assessment pattern

Duration of courseThe content of the course will be covered in one 15-week academic semester with 2 hours of instruction per week.

Mode of instruction2. Most of the instructions will be lecture-oriented, but students can still interrupt the

instructor and ask some questions3. Students are encouraged to seek external help from libraries, fellow students,

etc.4. There will be two major assignments and two tests.


Assessment Pattern

The following instruments will be used to assess the extent of growth in skills, abilities, and understanding required

Requirements No of units contributionTests (2) 30%Assignments (2) 10%Final examination (1) 60%


Marks % Letter grade Grade point80-100 A 5.075-79.9 B+ 4.570-74.9 B 4.065-69.9 B- 3.560-64.9 C+ 3.055-59.9 C 2.550-54.9 C- 2.045-49.9 D+ 1.540-44.9 D 1.035-39.9 D- 0.5

Reading List

Lee, I.K., (1983). Geotechnical Engineering, Pitman Publishing Theo, London, 508P.

Road Research Laboratory, (1951). Soil Mechanics for Road Engineers, Her Majesty’s Stationary Office, London, 541P.

Craig, R.F. (1990). Soil Mechanics, Van Nostrand Reinhold (UK) Co. Ltd, London, 419P

Prentice, J.E. (1990). Geology of Construction Materials, Chapman and Hall, London, 202P

Manning, D.A.C, (1995). Industrial Minerals, Chapman and Hall, London, 275P. Bell, F.G., (1993). Engineering Geology, Blackwell Science Ltd, London, 359P


Course Outline

Introduction to building materials. Influence of geology on foundation design. Engineering properties of soils Soil mechanics Soil characterization Soil profile Examples relating soil properties Compaction of soils Compaction energy Physical geology and relationship between engineering and geology


Introduction to building materials. (1 week) Influence of geology on foundation design. (2 week) Engineering properties of soils (3 week) Soil mechanics (2 week) Soil characterization (1 week) Soil profile (2 week) Examples relating soil properties (1 week) Compaction of soils (1 week) Compaction energy (1 week) Physical geology and relationship between engineering and geology (1 week)

Responsibilities of the Student

Regular attendance of the course lectures, do all assignments and tests, acquire more literature about the subject through the media, journals, reports, etc

Responsibilities of the Course Lecturer2. Regular and punctual teaching3. Proper and accurate grading of assignments, tests and exams4. His/her availability to assist students after formal lectures

Environmental Geochemistry I

1. Course Name: Environmental Geochemistry I2. Course Code: GRM 22053. Course Description

This is the first of two parts of environmental geochemistry. It introduces students to how natural and some mad-made pollutants are disseminated in the environment. It covers topics including ecosystems, physical processes affecting contaminant fate, dispersion and transport in the physical environment, types and kinds of pollution, global warming and climate change, water pollution, radioactivity and mineral nutrients.


Ecosystems Physical processes affecting contaminant fate and transport in terrestrial and water environments


Mechanical and biological dissemination of contaminants Pollution Types and kinds of pollution Water pollution Global warming and climate change Radioactivity Mineral nutrients



recognise the interwoven nature of the ecosystem introduce students to natural and man-made effects on the environmnet and human health present the ways in which contaminants move in the different environmental media identify the various sources of pollution and they affect the environment with an emphasis on

water introduce the global warming concept give an overview of the environmental impacts of radioactivity explain the importance of some elements to human health



The content of the course will be covered in one 15-week semester with three hours of instruction per week.

Mode of Instruction



at agreed times There will be monthly assignments. There will at least be two major tests

Assessment Pattern



241

40%60%

Total 100%




80 - 100 A 575 – 79.9 B+ 4.570 – 74.9 B 4.065 – 69.9 B- 3.560 –64.9 C+ 3.055 – 59.9 C 2.550 – 54.9 C- 2.045 – 49.9 D+ 1.540 – 44.9 D 1.035 – 39.9 D- 0.5Below 35 E 0

7. Reading List


Alloway, B.J. & Ayres, D.C. (1997): Chemical Principles of Environmental Pollution. Blackie, 395 ppFleet, M.E. (ed) (1984): A short Course in Environmental Geochemistry. Mineralogical Association of

Canada. 306 pp.Pepper, I.L., Gerba, C.P. & Brusseau, M.L. (1996): Pollution Science, Academic Press. 397pp Rose, A.W., Hawkes H.E. (1979): Geochemistry in Mineral Exploration, Academi Press. 657ppLecture Notes by A. Muwanga

7.Course Outline

Ecosystems

Functions of an ecosystem, ecosystems as food chains, terrestrial ecosystems, aquatic ecosystems, ecosystem processes

Physical processes affecting contaminant fate and transport in terrestrial and water environments

Water in soil and groundwater; movement of water in soil and groundwater – saturated flow, unsaturated flow, transient flow; movements of contaminants in soil and groundwater

Mechanical and biological dissemination of contaminants

Mechanical factors, biological factors, effect of the environment on dispersion

Pollution

Sources of pollution, point and non-point sourcesTypes and kinds of pollution: Atmospheric pollution, types of atmospheric pollution; Water pollution – inorganic water pollutants, organic water pollutants; petroleum hydrocarbons, halogenated compounds; acid rain

Global warming and climate change

Causes, health and environmental effects


Radioactivity

Basics; radionuclides; ionising and non-ionising radiation, environmental and health effects of some types of radiation

Mineral nutrients

Macronutrients and micronutrients and their importance to human health


I. Ecosystems (2weeks)

Functions of an ecosystem Ecosystems as food chains Terrestrial ecosystems Aquatic ecosystems Ecosystem processes

II. Physical processes affecting contaminant fate and transport in terrestrial and water

environments (3weeks) Assignment 1

Water in soil and groundwater Movement of water in soil and groundwater – saturated flow, unsaturated flow, transient flow Movements of contaminants in soil and groundwater

III. Mechanical and biological dissemination of contaminants (2weeks)

Mechanical factors Biological factors Effect of the environment on dispersion

TEST 1

IV. Pollution (3weeks) Assignment 2

Sources of pollution, point and non-point sources Types and kinds of pollution:

o Atmospheric pollution, types of atmospheric pollutiono Water pollution – inorganic water pollutants, organic water pollutantso Petroleum hydrocarbonso Halogenated compoundso Acid rain

V. Global warming and climate change (1week)

Causes, health and environmental effects

VI. Radioactivity (3weeks) Assignment 3

Basics Radionuclides Ionising and non-ionising radiation


Environmental and health effects of some types of radiation

TEST 2VII. Mineral nutrients (2weeks) Assignment 4

Macronutrients and micronutrients and their importance to human health





Environmental Geochemistry II

1. Course Name: Environmental Geochemistry II2. Course Code: GRM 3104 3. Course Description

This is the second of two courses on environmental geochemistry. It introduces the different chemical processes occurring in the surficial environment. It further covers the chemical environmental impacts of mining with possible remedial measures and goes on to give a detailed account on the behaviour and environmental/health effects of various metals. An overview of the effects of hydrocarbon contaminants in soils and groundwater is also given.


Chemical processes in the surface environment Behaviour of heavy metals in the environment Occurrence, chemistry uses and environmental effects of selected metals Environmental effects of mining Hydrocarbons in soil and groundwater



Introduce the different chemical processes occurring in the surficial environment. Outline the behaviour of selected metals in the environment including their environmental and

health effects. Provide knowledge on the impacts of mining with suggestions of some remedial measures Give an overview of the effects of hydrocarbon contaminants in soil and groundwater.



The content of the course will be covered in one 15-week semester with three hours of instruction per week. Practicals will be arranged after covering the engineering properties of rocks and soils.


Mode of Instruction

Most of the instruction will classroom based and students will be encouraged to ask questions during the lecture.Where available, slides will be used for demonstration.



Assessment Pattern



241

40%60%

Total 100%



7. Reading List


Alloway, B.J. & Ayres, D.C. (1993); Chemical Principles of Environmental Pollution, BlackieFergusson, J. E. (1990); The heavy Elements: Chemistry, Environmental Impact and Health Effects, PergamonBowie, S.H.U. & Thornton, I. (eds.) (1984): Environmental Geochemistry and Health, KluwerFoerstner, U. & Wittmann, G.T.W. (1979): Metal pollution in the Aquatic Environment, SpringerSengupta, M. (1992): Environmental Impacts of Mining; Monitoring, Restoration and Control, LewisSalomons, W. & Förstner, U. (1984): Metals in the Hydrocycle. Springer.


7.Course Outline

Chemical processes in the surface environment


Influence of bedrock on weathering. chemical factors influencing redistribution of elements; behaviour of heavy metals in the environment -

Behaviour of heavy metals in the environment

General properties, biochemical properties of heavy metals, sources of heavy metals; environmental media affected , behaviour of metal pollutants in the environment;

Occurrence, chemistry uses and environmental effects of selected metals

Occurrence, chemistry, uses, emission into the environment, sources and potential exposure, environmental and health effects of the following metals: As, Cd, Cr, Co, Cu, Pb., Mn, Hg, Ni, Ser, U, Zn.

Environmental effects of mining

Acid mine drainage, acid generation, remedial measures, mitigation measures; mining impacts on social / cultural aspects, remedial measures

Hydrocarbons in soil and groundwater

BTEX, fate and transport, contaminant properties, routes of intake; Non Aqueous Phase Liquids (NAPL), NAPL detection and characterisation, remediation techniques.


I. Chemical processes in the surface environment (2 weeks)

Influence of bedrock on weathering Chemical factors influencing redistribution of elements

II. Behaviour of heavy metals in the environment (3weeks) Assignment 1

General properties Biochemical properties of heavy metals Sources of heavy metals Environmental media affected Behaviour of metal pollutants in the environment

TEST 1IV. Occurrence, chemistry uses and environmental effects of selected metals

(6 weeks) Assignment 2

Occurrence Chemistry Uses Emission into the environment Sources and potential exposure Environmental and Health effects of the following metals:

o As, Cd, Cr, Co, Cu, Pb., Mn, Hg, Ni, Ser, U, Zn.

V. Environmental effects of mining (2 weeks) Assignment 3

Acid mine drainage Acid generation

o Remedial measures


o Mitigation measures Mining impacts on social / cultural aspects

o Remedial measures

TEST 2

VI. Hydrocarbons in soil and groundwater (2 weeks) Assignment 4

BTEXo Fate and transporto Contaminant propertieso Routes of intake

Non Aqueous Phase Liquids (NAPL)o NAPL detection and characterisation,o Remediation techniques.


Regular attendance, do all assignments and tests10. Responsibility of the Lecturer


Transportation Routes, Tunnels, Dams and Reservoirs

1. Course Name: Transportation Routes, Tunnels, Dams and Reservoirs2. Course Code: GRM 32013. Course Description

This is a detailed course exposing students to geological site investigations carried out for civil engineering projects of transportation routes, tunnels, dams and reservoirs. It includes surveying for route selection, foundation investigations and location of materials for transportation routes. It also covers surveying for, construction methods of and groundwater problems in tunnels as well as types of dams, geological requirements and materials of construction for dams.

As from the title, the course is divided into three major topics:

Transportation routes Tunnels and underground excavations Dams and reservoirs.



Recognise that civil engineering structures covered in this course are founded on geological materials.

Highlight the complementary role played by geology in enhancing stability and safety of civil engineering structures.

Give a step by step process of site investigations for the civil engineering projects covered in the course.




The content of the course will be covered in one 15-week semester with three hours of instruction per week. Mode of Instruction

Most of the instruction will be lecture-oriented but students will be encouraged to ask questions during the lectures.


at agreed times There will be assignments at the end of each topic There will at least be two major tests

Assessment Pattern



231

40%60%

Total 100%



7. Reading List


Legget, R.F. (1967): Geology and Engineering. McGraw-Hill Book Co.Attewell , P.B. & Farmer, I.W. (1976): Principals of Engineering Geology, Chapman & HallGSA (1982): Reviews of Engineering Geology: Geology under CitiesGSA (1968): Engineering Geology Case Histories 6 – 10Road Research Laboratory (1961): Soil Mechanics for Road Engineers


Technical Manuals of US Army Corps of Engineers (Internet)


7.Course Outline

Transportation routes

Definitions, route selection, flexible pavements, subgrades, bituminous pavements, drainage of pavements.

Tunnels and underground excavations

Terminology, geotechnical investigation of tunnels, construction of shafts and tunnels, excavation by drilling and blasting, ground support, drainage and control of groundwater, construction of tunnel linings, ventilation of shafts and tunnels, construction hazards and safety requirements.

Water reservoirs and dams

Introduction, terminology and definitions; types of dams, site investigation – geological assessment, geotechnical investigation, seismic analysis, field investigation; arch dams – foundation investigations, instrumentation; gravity dams – site selection, construction materials; earth/rockfill dams – earth embankments and foundations; embankment slope stability;: causes of dam failure; case histories.


I. Transportation Routes (4 weeks) Assignment 1

Definitions Route selection Flexible pavements Subgrades Bituminous pavements Drainage of pavements. Terrain evaluation for highway projects

II. Tunnels and underground excavations (51/2 weeks) Assignment 2

Terminology Geotechnical investigation of tunnels Construction of shafts and tunnels Excavation by drilling and blasting Ground support Drainage and control of groundwater Construction of tunnel linings Ventilation of shafts and tunnels Construction hazards and safety requirements.

TEST 1III. Water Reservoirs and Dams (51/2 weeks) Assignment 3


Introduction Terminology and definitions Types of dams Site investigation – geological assessment, geotechnical investigation, seismic analysis, field

investigation Arch dams – foundation investigations, instrumentation Gravity dams – site selection, construction materials Earth/rockfill dams – earth embankments and foundations; embankment slope stability Causes of dam failure Case histories.

TEST 29. Responsibility of the Student




Structural Geology and Geotectonics

1. Course Name: Structural Geology and Geotectonics

2. Course Code: GLO2102


Structural geology and geotectonics is a full-fledged course which introduces a student to, and offers an in-depth overview of the different aspects of this branch of Geology. It is subdivided and taught in 5 major parts namely:

Introduction and primary rock structures Mechanics of deformation Secondary rock structures Geotectonics Practical


The objectives of this course are: To offer an understanding of the background and scope of structural geology. To unravel the processes involved in the formation of rocks and unveil the criteria that control the

mechanisms of rock deformation To explain the effect of deforming forces on the structure of the rocks and classify the related

structures. To show how the determination of strain in deformed rocks is done. To understand the broad structure of the earth, the processes that have molded it into its present

form and how they are related. To enable the students to identify structures, collect structural data and stereographically analyze it

in order to provide correct interpretations.


Duration of course


The content of the course will be covered in one 15-week academic semester with three hours of instruction per week and weekly two-hour practical sessions during which the students are guided on methods of structural data analysis and taught to interpret their results accordingly. These sessions may also be used to carry out research for their courseworks or assignments when and if necessary.

Mode of Instruction Most of the instruction will be lecture-oriented, but students are allowed to ask questions. Sometimes students will be asked to research on specified subtopics and present their findings in

form of a tutorial. Students can seek assistance from the internet, course lecturer or any geology instructor outside the lecture room.

An assignment or coursework will be given for each subtopic and at least two tests. The students will be introduced to the practical aspects and will be expected to do them

themselves.

Assessment PatternThe students’ abilities and progress in understanding the course will be judged as follows:

Requirements No. of units ContributionAssignments (4) 10%Practical (4) 10%Tests (2) 20%Final examination (1) 60%_________________________________________________________Total 100%



6. Reading List The reading list will include but not be limited to the following texts

Collinson & Thomson D. B.1987. Sedimentary Structures. Davis G. H. 1984. Structural Geology of Rocks. Hobbs, Means & Williams1976. An Outline of Structural Geology. Hills E. S. 1970. Elements of Structural Geology. Jaegar & Cook 1969. Fundamentals of Rock Mechanics. Park R. G. 1989. Foundations of Structural Geology. Phillips F. C. The Use of Stratigraphic Projection in Structural Geology. 3rd Edition. Price N. J. 1966. Fault and Joint Development in Brittle and Semi-Brittle Rock. Ragan M. D. 1985. Structural Geology: An Introduction to Geometric Techniques. 3rd Edition. Ramsay 1967. Folding and Fracturing of Rocks. Ramsay 1983. Stress and Strain Analysis.


7. Course Outline

Scope and nature of geology, primary structures. Stress and strain, rheological behavior of rocks, mechanisms of deformation, folds and

mechanisms of folding, foliations. Failure by rupture: joints, fault and mechanisms of faulting. Structures in intrusive and extrusive igneous rocks, salt domes and diapers. Plate tectonics, geosynclines, orogenic belts and rift zones. Practicals: principle of stereographic projection, plotting structural elements, rotations and their

stereographic analysis, beta-diagrams, pi-diagrams, contour/density diagrams, interpretation of contoure/density diagrams


[5 weeks] [Assignment 1]Scope and nature of geology, primary structures, Stress and strain, rheological behavior of rocks,

mechanisms of deformation, Folds and mechanisms of folding, foliations- cleavage, lineations, schistocity

[3 weeks] [Assignment 2] Failure by rupture: joints, classification and recognition of faults, mechanisms of faulting.

[Test 1]

Structures in intrusive and extrusive igneous rocks, salt domes and diapers.

[3 weeks] [Assignment 3 ]

Geotectonics- plate tectonics, geosynclines, orogenic belts and rift zones.

[Test 2]

[3 weeks] [Assignment 1]

Practicals: principle of stereographic projection, plotting structural elements-lines,planes, intersecting lines and planes

[3 weeks] [Assignment 2 & 3]

Rotations about horizontal, vertical and inclined axes, stereographic analysis of rotations


Structural analysis: Beta (β)-diagrams, Pi ()-diagrams

[2 weeks] [Assignment 6] Contour/Density diagrams, interpretation of contour diagrams

9. Responsibility of the student

Attend all lectures and practical sessions, do and submit all assignments, tests and final examinations.

10. Responsibility of the course lecturer


Regular and punctual teaching, arrange for practical sessions, be available to assist students outside formal lectures, accurate and prompt grading of assignments, homework, practicals, tests and final examinations.

Structural Geology and Tectonics

1. Course Name: Structural Geology and Tectonics2. Course Code: GRM11033. Course Description

Structural geology and geotectonics is a full-fledged course which introduces a student to, and offers an in-depth coverage of the different aspects of this branch of Geology. It is subdivided and taught in 5 major parts namely:

Scope, Nature and primary rock structures Mechanics of deformation Secondary rock structures Geotectonics Practical


The objectives of this course are: To offer an understanding of the background and scope of structural geology. To unravel the processes involved in the formation of rocks and unveil the criteria that control the

mechanisms of rock deformation To explain the effect of deforming forces on the structure of the rocks and classify the related

structures. To show how the determination of strain in deformed rocks is done. To understand the broad structure of the earth, the processes that have molded it into its present

form and how they are related. To enable the students to identify structures, collect structural data and stereographically analyze it

in order to provide correct interpretations.


Duration of courseThe content of the course will be covered in one 15-week academic semester with three hours of instruction per week and weekly two-hour practical sessions during which the students are guided on methods of structural data analysis and taught to interpret their results accordingly. These sessions may also be used to carry out research for their courseworks or assignments when and if necessary.

Mode of Instruction Most of the instruction will be lecture-oriented, but students are allowed to ask questions. Sometimes students will be asked to research on specified subtopics and present their findings in

form of a tutorial. Students can seek assistance from the internet, course lecturere or any geology instrcutor outside the lecture room.

An assignment or coursework will be given for each subtopic and at least two tests. The students will be introduced to the practicals and will be expected to do them themselves.


Requirements No. of units Contribution


Assignments (4) 10%Practicals (4) 10%Tests (2) 20%Final examination (1) 60%_________________________________________________________Total 100%




Collinson & Thomson D. B.1987. Sedimentary Structures. Davis G. H. 1984. Structural Geology of Rocks. Hobbs, Means & Williams1976. An Outline of Structural Geology. Hills E. S. 1970. Elements of Structural Geology. Jaegar & Cook 1969. Fundamentals of Rock Mechanics. Park R. G. 1989. Foundations of Structural Geology. Phillips F. C. The Use of Stratigraphic Projection in Structural Geology. 3rd Edition. Price N. J. 1966. Fault and Joint Development in Brittle and Semi-Brittle Rock. Ragan M. D. 1985. Structural Geology: An Introduction to Geometric Techniques. 3rd Edition. Ramsay 1967. Folding and Fracturing of Rocks. Ramsay 1983. Stress and Strain Analysis.

7. Course Outline

Scope and nature of geology, primary structures. Stress and strain, rheological behavior of rocks, mechanisms of deformation, folds and

mechanisms of folding, foliations. Failure by rupture: joints, fault and mechanisms of faulting. Structures in intrusive and extrusive igneous rocks, salt domes and diapers. Plate tectonics, geosynclines, orogenic belts and rift zones. Practicals: principle of stereographic projection, plotting structural elements, rotations and their

stereographic analysis, beta-diagrams, pi-diagrams, contour/density diagrams, interpretation of contoure/density diagrams


[5 weeks] [Assignment 1]Scope and nature of geology, primary structures, Stress and strain, rheological behavior of rocks,

mechanisms of deformation,


Folds and mechanisms of folding, foliations- cleavage, lineations, schistocity

[3 weeks] [Assignment 2] Failure by rupture: joints, classification and recognition of faults, mechanisms of faulting.

[Test 1] Structures in intrusive and extrusive igneous rocks, salt domes and diapers.

[3 weeks] [Assignment 3 ] Geotectonics- plate tectonics, geosynclines, orogenic belts and rift zones.

[Test 2][3 weeks] [Assignment 1]

Practicals: principle of stereographic projection, plotting structural elements-lines,planes, intersecting lines and planes


Rotations about horizontal, vertical and inclined axes, stereographic analysis of rotations


Structural analysis: Beta (β)-diagrams, Pi ()-diagrams

[2 weeks] [Assignment 6] Contour/Density diagrams, interpretation of contour diagrams

9. Responsibility of the studentAttend all lectures and practical sessions, do and submit all assignments, tests and final examinations.

10. Responsibility of the course lecturerRegular and punctual teaching, arrange for practical sessions, be available to assist students outside formal lectures, accurate and prompt grading of assignments, homework, practicals, tests and final examinations.

Advanced Structural Geology and Geotectonics1 Course Name: Advanced Structural Geology and Geotectonics

2 Course Code: MGLO7202

3 Course Description

This is an advanced course in structural geology, which exposes the student to the different structural features, both micro- and macro-scopic; how they develop, analysis techniques, interpretation of structures with respect to tectonic processes. The practical aspect enables a student to work backward thereby unraveling the deformational history of the rocks.

The course is divided into four as seen below: Rock mechanics Fabrics and structural analysis Geotectonics Practical



To reconstruct the conditions and processes that control the development of complex plastic and brittle deformation systems

To deduce large structures of the earth from small –scale geologic structures To understand the concepts and criteria for rock deformation To understand the structure of the earth and the controls for distribution of the structures. To investigate the concepts of stress, strain, deformation mechanisms and methods of strain

measurement.

5. Teaching and assessment pattern

Duration of courseThe content of the course will be covered in one 15-week academic semester with 3 hours of instruction per week and weekly one-hour practical sessions.

Mode of instruction Part of the instruction will be lecture oriented especially introductory sessions, and the students are

allowed to ask questions The students will for certain topics be required to research and discuss during the lecture hours or

take the work as assignments There will be at least three major assignments and two tests There will be a series of practical sessions, four of which will be considered as coursework.

Assessment Pattern

The students’ abilities and progress in understanding the course will be judged as follows:Requirements No. of Units ContributionAssignments (3) 10%Practical (4) 10%Tests (2) 20%Final examinations (1) 60%_____________________________________________________Total 100%




6. Reading list

Collinson & Thomson D. B.1987. Sedimentary Structures. Davis G. H. 1984. Structural Geology of Rocks. Gilbert W.1982. Introduction to small-scale geological structures Hills E. S. 1970. Elements of Structural Geology. Hatcher D. R. 1995. Structural geology: principles, concepts and problems. 2nd edition. Hobbs, Means & Williams1976. An Outline of Structural Geology. Jaegar & Cook 1969. Fundamentals of Rock Mechanics. Park R. G. 1989. Foundations of Structural Geology. Passchier C. W. and Trouw R. A. J. 1996. Micro-tectonics Phillips F. C. The Use of Stratigraphic Projection in Structural Geology. 3rd Edition. Price N. J. 1966. Fault and Joint Development in Brittle and Semi-Brittle Rock. Ragan M. D. 1985. Structural Geology: An Introduction to Geometric Techniques. 3rd Edition. Ramsay 1967. Folding and Fracturing of Rocks. Ramsay 1983. Stress and Strain Analysis. Rowland M. S. and Duebendorfer M. E. 1994. Structural analysis and synthesis: A laboratory

course in structural geology. 2nd edition. Suppe J. 1985. Principles of structural geology.

7. Course Outline

Rock mechanics: [5 weeks] [Assignment 1]Complex plastic and brittle deformation systems, stress and strain, strain analysis, joints, shear fractures, shear zones, fault mechanics, fault classification &terminology, fold geometry and classification, fold mechanics, complex folds.

Fabrics and structural analysis: [4 weeks] [Assignment 2]Foliations- cleavage, lineations, lineament analysis, diagram techniques, construction and interpretation of block diagrams and contour maps

[Test 1]

Geotectonics: [3 weeks] [Assignment 3]Global geotectonic hypotheses, regional tectonic analysis of Precambrian shields and platforms, orogenic belts & rift zones, magma associations related to plate tectonics, structural framework of Africa.

[Test 2]

Practical: [10 weeks] [4 assignments]

Analysis of planar surfaces (assignment 1) Calculation of true and apparent dips (assignment 2), Handling contour maps (assignment 3), Methods of contouring, calculating true and apparent thicknesses (assignment 4)

9. Responsibility of the studentAttend all lectures and practical sessions regularly, do and submit all assignments, homework, tests and final examinations 10. Responsibility of the course lecturer


Regular and punctual teaching, arrange for practical sessions, be available to assist students outside formal lectures, accurate and prompt grading of assignments, homework, tests and final examinations.

Field Geology and Surveying1. Course Name: Field Geology and Surveying

2. Course Code: GLO2201


This is a comprehensive course that introduces and teaches students to the different things that a Geologist is required or expected to do right from the planning stage in the office (desk work) through the fieldwork season at the site to delivery of a complete, clearly understandable final report at the end of a project. It also introduces the students to the different methods, techniques and instruments used to examine and interprete structures and materials in the field.The course is divided into the following:

Planning for a field project Mapping, observing and collecting Report writing Practical


The objectives of this course are: To learn the activities involved in planning for a field project and the preparatory steps taken. To learn the different geologic mapping and surveying techniques To understand the field relations of the different rock types so as to be able to distinguish them

while mapping To know the different methods and equipment used to collect geologic data. To be able to recognize and distinguish between different rock structures. To be able to carry out proper collection, analysis and interpretation of geologic field data.


Duration of courseThe content of the course will be covered in one 15-week academic semester with three hours of instruction per week and weekly two-hour practical sessions during in the second half of the semester. This is for students to practice using available equipment and practice analyzing and interpreting geologic data.

Mode of Instruction Most of the instruction will be lecture-oriented, but students are allowed to ask questions. There will be at least two major assignments and two tests Because the course can not be pre-emptied, students are encouraged to read textbooks, visit the

internet for latest techniques and seek help from other geology instructors or geology-oriented organizations.

Each of the students will be required to participate with hands-on experience on the instruments during the practical sessions.


Requirements No. of units ContributionAssignments (24) 10%


Practicals (4) 10%Tests (2) 20%Final examination (1) 60%_________________________________________________________Total 100%




Clendinning J. & Olliver J.G. 1969. Principles and Use of Surveying Instruments. 3rd Edition. Compton R. R. 1962. Manual of Field Geology. Fry N. 1984. The Field Description of Metamorphic Rocks. Moseley F. 1981. Methods in Field Geology. Ritchie W, Wood, M, Wright R. R. & Tait D. 1988. Surveying and Mapping For Field Scientists. Thorpe R. G. The Field Description of Igneous Rocks.

7. Course Outline

Planning for a field project: consultation of existing sources of maps, aerial photographs; consideration of resources-funds, personnel and equipment; basic requirements for fieldwork.

Mapping, observing and collecting: methods & equipment for measuring distances, bearings & differences in elevation, maps & control surveys; field relations of sedimentary, igneous & metamorphic rocks; correlating rock units, interpreting complex relations; field recognition of structures; field water investigation; surveying instruments and techniques-compass clinometer levels, theodolite, alidade, altimeter; surveying methods- ground, aerial & remote sensing; geologic mapping techniques; point-fixing methods in field surveys; tacheometry; sampling & data collection.

Report writing: field communications- verbal communications; types & purposes of written communications; preparing geologic reports.

Practicals: use & safety of different equipment; organizing, analysis & interpretation of geologic data


[1 week] Planning for a field project: consultation of existing sources of maps, aerial photographs;

consideration of resources-funds, personnel and equipment; basic requirements for fieldwork.


[6 weeks] [Assignment 1] Mapping, observing and collecting: methods & equipment for measuring distances, bearings

& differences in elevation, maps & control surveys; field relations of sedimentary, igneous & metamorphic rocks; correlating rock units, interpreting complex relations; field recognition of structures; field water investigation;

[Test 1]


Surveying instruments and techniques-compass clinometer levels, theodolite, alidade, altimeter; surveying methods- ground, aerial & remote sensing; geologic mapping techniques; point-fixing methods in field surveys; tacheometry; sampling & data collection.


Report writing: field communications- verbal communications; types & purposes of written communications; preparing geologic reports.

[Test 2][7 weeks]

Practical: Use & safety of different equipment; organizing, analysis & interpretation of geologic data

9. Responsibility of the student

Attend all lectures and practical sessions, do and submit all assignments, tests and final examinations.


Regular and punctual teaching, arrange for practical sessions, be available to assist students outside formal lectures, accurate and prompt grading of assignments, homework, practicals, tests and final examinations.

Introduction to Natural Hazards1. Course Name: Introduction to Natural Hazards

2 Course Code: GRM 2101


This is an introductory course in natural hazards, introducing students to some of the different types of natural hazards, their geographic distribution, pre-conditions for occurrence, causes and effects. The course is divided into:

Types of natural hazards Landslides Soil erosion


The objectives of this course are: To give an overview of the likely causes and effects of natural hazards. To understand when natural phenomena become hazards and how man can enhance the hazard To distinguish between the different hazard types


To introduce students to some of the natural hazards that have occurred (worldwide and locally in Uganda) and their effects.


Duration of courseThe content of the course will be covered in one 15-week academic semester with two hours of instruction per week, although some hours may be devoted to handling assignments or tests where necessary.

Mode of Instruction Most of the instruction will be lecture-oriented, but students are allowed to ask questions. Students will be given homework from the different sections of the course which will require

researching from textbooks or the internet Students are encouraged to to seek help outside the lecture room from fellow students, the course

instructor or other geology instructors. There will be at least two major assignments and one test.


Requirements No. of units ContributionAssignments (2) 20%Tests (1) 20%Final examination (1) 60%_________________________________________________________Total 100%



6. Reading List

The reading list will include but not be limited to the following texts:

Bolt A. B., Horn W. L., Mac Donald G. A. & Scott R. F., 1975. Geological Hazards. Selby J. M. 1993. Hillslope Materials and Processes. 2nd Edition. Slossom E. J., Keene G. A. & Johnson A. J., (Editors) 1992: Landslides / Landslide Mitigation. Zaruba Q. & Mencl. V. 1982. Landslides and Their Control. 2nd Edition.


7. Course Outline

Types of natural hazards- examples of major natural disasters (e.g earthquakes, earthquakes, volcanic eruptions, landslides and floods) in human history and their drastic natural, social and economic effects on society.

Landslides- landslide types, falls, slides, flows, avalanches etc. causes of landslides: internal properties of the earth, geomorphic setting and external factors. Landslide mapping, assessment, prevention and control. Landslide hazards in Uganda.

Soil Erosion: types of soil erosion- rains-plash, sheet-wash, erosion by overland flow, rill erosion, gully erosion. Factors influencing soil erosion, running water and erodibility of soil, erosion features. Soil erosion in Uganda.


[2 weeks] [Assignment 1]Types of natural hazards- examples of major natural disasters (e.g earthquakes, earthquakes, volcanic eruptions, landslides and floods) in human history and their drastic natural, social and economic effects on society.


Landslides: landslide types- falls, slides, flows, avalanches etc. causes of landslides: internal properties of the earth, geomorphic setting and external factors. Landslide mapping, assessment, prevention and control. Landslide hazards in Uganda.


Soil erosion: types of soil erosion- rains-plash, sheet-wash, erosion by overland flow, rill erosion, gully erosion. Factors influencing soil erosion, running water and erodibility of soil, erosion features. Soil erosion in Uganda.

[Test 1]9. Responsibility of the studentAttend all lectures, do and submit all assignments, homework, tests and final examinations.

10. Responsibility of the course lecturerRegular and punctual teaching, be available to assist students outside formal lectures, accurate and prompt grading of assignments, homework, tests and final examinations.

Natural Hazards and their Mitigation1. Course Name: Natural Hazards and their Mitigation

2 Course Code: GRM 2201


This course provides a detailed account of t eh different types of natural hazards, their causes, effects and various possible mitigation measures. The course is divided into:

Earthquake hazards Volcanic eruptions Floods



The objectives of this course are: To explore the different causes of earthquakes, volcanic and flood hazards. To understand the controls their general geographic distribution. To understand what man can do to mitigate hazards from such natural phenomena. To understand the relationship prevalent between human activities and responses with the extents

of the various hazards.


Duration of courseThe content of the course will be covered in one 15-week academic semester with four hours of instruction per week, although some hours may be devoted to handling assignments or tests where necessary.

Mode of Instruction Most of the instruction will be lecture-oriented, but students are allowed to ask questions. Students will be given homework from the different sections of the course which will require

researching from textbooks or the internet Students are encouraged to seek help outside the lecture room from fellow students, the course

instructor or other geology instructors. There will be at least two major assignments and one test.

Assessment Pattern

The students’ abilities and progress in understanding the course will be judged as follows:

Requirements No. of units ContributionAssignments (3) 20%Tests (2) 20%Final examination (1) 60%_________________________________________________________Total 100%



6. Reading List The reading list will include but not be limited to the following texts:


Bolt A. B., Horn W. L., Mac Donald G. A. & Scott R. F., 1975. Geological Hazards. Earthquakes and Geological Hazard Prediction: 27th International Geological Congress,

Colloquium 06, Reports vol.6, 1984. Hodgson H. G., 1964. Earthquakes and Earth Structures. Rikitake T. (editor) 1982. Earthquake Forecasting and Warning. Selby J. M. 1993. Hillslope Materials and Processes. 2nd Edition. Slossom E. J., Keene G. A. & Johnson A. J., (Editors) 1992: Landslides / Landslide Mitigation. UNESCO Report 1972. The Surveillance and Prediction of Volcanic Activity: A Review of

Methods and Techniques. UNESCO Report 19782. Natural Hazards: The Assessment and Mitigation of Earthquake Risk. Zaruba Q. & Mencl. V. 1982. Landslides and Their Control. 2nd Edition.

7. Course Outline

Earthquake hazards: neotectonics: active faulting and associated hazards, tectonic models of earth’s crust and distribution and occurrence of earthquakes, earthquake measurement, prediction. Earthquake hazards and land-use planning, siesmic hazard history.

Volcanic eruptions: Relationships to plate tectonics, occurrence and distribution of volcanism, classification and characteristics of volcanoes. hazards associated with volcanic eruptions- ash, rock fragments, lava flows, mud flows (lahars).

Floods: Physical characteristics of floods. Origin of floods: geologic activity and human activity. Floodplain and watershed management. Detailed flood hazards. Zone mapping. Methods of flood control downstream (downstream management)


[4 weeks] [Assignment 1]Earthquake hazards: neotectonics: active faulting and associated hazards, tectonic models of earth’s crust and distribution and occurrence of earthquakes, earthquake measurement, prediction. Earthquake hazards and land-use planning, siesmic hazard history.

[4 weeks] [Assignment 2]Volcanic eruptions: Relationships to plate tectonics, occurrence and distribution of volcanism, classification and characteristics of volcanoes. hazards associated with volcanic eruptions- ash, rock fragments, lava flows, mud flows (lahars).

[Test 1]


Floods: Physical characteristics of floods. Origin of floods: geologic activity and human activity. Floodplain and watershed management. Detailed flood hazards. Zone mapping. Methods of flood control downstream (downstream management)

[Test 2] 9. Responsibility of the student

Attend all lectures, do and submit all assignments, homework, tests and final examinations.



Regular and punctual teaching, be available to assist students outside formal lectures, accurate and prompt grading of assignments, homework, tests and final examinations.

DEPARTMENT OF MATHEMATICS

THE FOLLOWING ASPECTS ARE COMMON TO ALL 3 CREDIT UNIT COURSES

Duration of Course

The content of the course will be covered in one academic semester with two hours of instruction per week and a problems session of one hour per week to go over assignments, home-works and tests.

Mode of Instruction Most of the instruction will be lecture-oriented, but students can still interrupt

the instructor and ask some questions Students are encouraged to seek help outside the Lecture Room from fellow

students, the course instructor or from other mathematics instructors. There will be a weekly assignment to be handed in the following week. There will be at least two major homeworks/assignments and at least two

tests.

Responsibility of the StudentRegular attendance; do all assignments, homework, and tests. Seek help outside class hours when in need.

Responsibility of the Course LecturerRegular and punctual teaching; accurate and prompt grading of assignments, homework, tests and examinations and available to assist students after formal lectures.


MTH 1101: Calculus I, 3CUPre-requisites: None

Course DescriptionThis course introduces the two main branches of Calculus: Differential and Integral Calculus. Differential Calculus studies rates of change in one quantity relative to rate of change in another quantity and Integral Calculus studies the accumulation of quantities such as distance travelled or area under a curve. The two processes are inversely related as specified by the Fundamental Theorem of Calculus.

Course ObjectivesAt the end of this course the student should be able to:

demonstrate a good overall conceptual understanding of functions and their graphical, numerical, analytical, and verbal representations

state and prove theorems on limits; compute limit of a function identify functions that are continuous compute derivative of a function from first principles apply differentiation to solve real life problems evaluate the definite integral of a function as a limit of Riemann sums apply integration to compute area of region, volume of a solid

Reading ListThe reading list will include but is not limited to the following texts.

Text recommended by the course lecturer Notes prepared by the lecturer Calculus with Analytical Geometry, Edwards, C.H. Jr. and Penney, David E., 4th Edition,

Englewood Cliffs: Prentice Hall Inc., 1994 Calculus Fong Yuen and Wang Yuen: Springer, 1999 Calculus, Dale Varberg and Edwin J. Purcell, Eighth Edition, Prentice-Hall, 2000 Calculus, Dennis D. Berkey and Paul Blanchard, Saunders College Publishing.

Detailed Course Outline

Review of Functions and GraphsRelations, function, domain, range, composition of functions. One-to-one and onto functions. Inverses, graphs of functions

Limits and Continuity The concept of the limit, computation of limits, one-sided limits, limits involving infinity, formal definition of the limit and simple computations, continuity of functions.

DifferentiationThe derivative, the derivative as a function, computation of derivatives, relation between differentiable functions and continuous functions, tangent lines and velocity, the power rule, the product and quotient rules, derivatives of trigonometric functions, derivatives of exponential and logarithmic functions, the chain rule, implicit differentiation, higher order derivatives, the mean value theorem, Rolles’ theorem, L’Hospital’s rule, increments and differentials

Applications of DifferentiationLinear approximation and Newton’s method, maximum and minimum values [optimization], increasing and decreasing functions, concavity, overview of curve sketching, rates of change, related rates.

Integration


Anti-derivatives, Riemann sums, area, the definite integral, the fundamental theorem of Calculus, techniques of integration, the mean value theorem for integrals, average value.

Applications of the Definite Integral Area between curves, volume, surface area of a volume of solid of revolution.

MTH 1102: Linear Algebra I, 3CUPre-requisites: None

Course DescriptionThe course introduces students to vectors, vector spaces, linear transformations and systems of linear equations. Using systems of linear equations, the course explores mathematical properties of a vector space such as linear independence, bases and dimension. Linear transformations are studied as relationships between vector spaces leading to the rank-nullity theorem. The course also introduces students to eigenspaces and diagonalisation.

Course ObjectivesBy the end of the course, students should be able to:

define vector spaces solve linear systems compute eigenvalues, eigenvectors of matrices and diagonalize matrices state and prove the rank-nullity theorem


Text recommended by the course lecturer Notes prepared by the lecturer Howard Anton; Elementary Linear Algebra Seymour Lipschutz; Theory and Problems of Linear Algebra Gilbert Strang; Linear Algebra and its Applications


General vector spaces Euclidean n-space, matrix space, polynomial space, and function space; subspaces. Solutions of systems of Linear equationsMatrices, Gaussian and Gauss-Jordan elimination, elementary matrices, echelon forms, determinants, Cramer’s rule.

Properties of Vector spacesLinear independence, spanning sets, basis, dimension, row and column spaces, rank.

Linear transformationKernel, range, matrix of linear transformations. Eigenvalues and eigenvectors, diagonalization.

MTH 1201: Calculus II, 3CUPre-requisites: MTH1101

Course Description


This course is a continuation of Calculus I. In this course integration of a non-continuous function is tackled. Different coordinates systems and the procedure of moving from one to another are studied. Computations are made of various quantities like the equations of lines and planes, the length of an arc and the surface area of a body. Functions of different variables are introduced with easy computations of multiple integrals.


identify and evaluate an improper integral apply polar coordinates to carry out integration of some functions compute the vector equation of a line and plane compute areas of regions and arc lengths compute double and triple integrals.


Text recommended by the course lecturer Notes prepared by the lecturer Calculus with Analytical Geometry, Edwards, C.H. Jr. and Penney, David E., 4th Edition,

Englewood Cliffs: Prentice Hall Inc., 1994 Calculus Fong Yuen and Wang Yuen: Springer, 1999 Calculus, Dale Varberg and Edwin J. Purcell, Eighth Edition, Prentice-Hall, 2000 Calculus, Dennis D. Berkey and Paul Blanchard, Saunders College Publishing.


Improper IntegralsForms of improper integrals, divergence and convergence of improper integrals, evaluation of improper integrals

Polar CoordinatesPolar to Cartesian coordinate conversions and vice versa, Sketching of curves given in polar coordinates. Special conics (parabola, ellipse and hyperbola) in polar coordinates. Arch length, area, and tangents in polar coordinates. Cylindrical and spherical coordinates

Vectors, Lines and Planes Vectors in the plane and in space. Lines in space. The dot product. The cross product. Equations of lines and planes.

Vector valued functionsVectors function, component functions, Limits and continuity. Special curve: helix. Derivatives and integrals, applications to surface areas, volumes and normal. Formulas of arch length and curvature.

Functions of several variables Real valued functions: graphs of real valued functions of several variables, partial Differentiation: partial derivatives, tangent planes and normals, maxima and minima. Double integrals over rectangles, triple integrals, change of order of integration.

MTH1202: Elements of Probability and Statistics, 3CUPre-requisites: None


Course DescriptionThis is an introductory course in probability and statistics. It introduces the student to sample spaces, algebra of events, defines probability and gives its axioms. It also covers conditional probabilities, independence of events, Bayes’ theorem and application of combinatorial theory. In addition, random variables and probability distributions are studied. It ends with introduction to the sampling theory and statistical inference.

Course ObjectivesThe objectives of the course are:

To identify common distributions and their applications. To lay a foundation for advanced study in probability and statistics. To make inference on the mean of a normal distribution. To simulate values from these distributions


Walpole, R.E. (1990). Introduction to Statistics, 3rd Edition, Macmillan Publishing co. Inc. New York.

Lawson, W, Hubbard, S. and Pugh, P. Mathematics and Statistics for Business, Longman Scientific and technical.

F. Nabugoomu, Lecture Notes.


Probability Spaces Statistical experiments, sample space, events, operations of set theory, axiomatic definition of probability, computing probabilities, counting methods, usage of results in combinatorial theory in determining probabilities of events; conditional probability, multiplicative rule, independence and mutually exclusive events. Bayes’ Theorem.

Random Variables Concept of a random variables, discrete random variables, continuous random variables, the cumulative distribution function. The mean and variance of a random variable. Mean and variance of a function of a random variable.

Common discrete distributions The Uniform distribution, The Bernouli and Binomial distributions, The Geometric distribution, The Hypergeometric distribution, the Poisson distribution, including the Possion approximation to the Binomial.

Common continuous distributions The uniform distribution, The exponential and chi-square distribution, The normal distribution, the standard normal , areas under the normal curve, applications, normal approximation to the Binomial and Poisson.

Sampling TheorySurvey sampling: why sampling, simple random sampling including a practical example on how to construct a simple random sample. Stratified random sampling, systematic sampling and cluster sampling. Sampling distribution of the mean, including the standard error of the sampling distribution of the mean, practical applications

Methods of Statistical Inference. Parameter estimation: point and interval estimation of the mean of normal distribution: One sample case. Hypothesis testing.


MTH2101: Real Analysis, 3CUPre-requisites: MTH1201

Course DescriptionThis course consists of understanding and constructing definitions, theorems, propositions, lemmas, etcetera and proofs of fundamental ideas/statements in Calculus. It is considered one of the more demanding undergraduate Mathematics courses, but one that every Mathematician should do. The key words in the course are ‘rigor’ and ‘proof.

Course ObjectivesThis course is intended

To impart competence in making rigorous proofs of statements in Mathematics To provide a rigorous development of the fundamental ideas of Calculus To develop the student’s ability to handle abstract ideas of Mathematics and

Mathematical proofs


1. Russell Gordon, Real Analysis: A First Course, Addison-Wesley, 20022. Manfred Stoll, Introduction to Real Analysis, Addison- Wesley, 20003. K. G. Binmore, Introduction to Mathematical Analysis, Cambridge University Press, 4. R. Haggarty, Fundamentals of Mathematical Analysis, Addison- Wesley, 19935. C. Clark, Elementary Mathematical Analysis, Wadsworth,6. S. H. Nsubuga, Lecture notes: Analysis I Handbook, 19957. Walter Rudin, Principles of Real Analysis, McGraw-Hill, 1976.8. F. Mary Hart, Guide to Analysis, Macmillan, 1988.9. J. Kasozi, PJ. Mangheni and MK. Nganda, Real Analysis, ISBN 9970 423 09 410. Dennis D. Berkey and Paul Blanchard, Calculus, Saunders College Publishing.11. Any other relevant textbooks, websites and resources in the library or else where.

Detailed Course Curriculum

Logic and techniques of Proof

Real NumbersWhat is a real number? Absolute values, intervals, inequalities. The Completeness Axiom, countable and uncountable sets, real valued functions, subsets of R – open, closed, bounded, neighborhoods, limit points

Sequences of Real NumbersConvergent sequences, limit theorems, monotone sequences, Cauchy sequences, subsequences

Limits and ContinuityFormal definition of a limit, continuous functions, Intermediate and extreme value theorems, uniform continuity, monotone functions and inverses

DifferentiationThe derivative of a function, Mean value theorems, L’Hospital’s rule, derivatives of higher order, Taylor’s theorem


Series of Real NumbersConvergence of infinite series, convergence tests, absolute and conditional convergence, rearrangements and products, square summable sequences

Sequence and Series of functionsPointwise convergence, Uniform convergence, Uniform convergence and continuity, Uniform convergence and integration, Uniform convergence and differentiation, Power series, Differentiation and Integration of Power series, Taylor and Maclaurin series

Riemann Integral: review, using epsilon definition.

MTH 2102: Probability Theory, 3CU Pre-requisites: MTH1202

Course Description This course focuses on introductory probability and its applications to statistics. It starts with the review of probability spaces, univariate random variables and functions of univariate random variables. It then covers generating functions, joint distributions and the distribution of functions of several random variables. The course ends with the description of the Law of Large Numbers (LLN) and the Central Limit Theorem (CTL).

Course ObjectivesThe objectives of the course are:

To compute moments, moment generating functions and probability generating functions of distributions.

To compute the mean and variance of distributions using the moment and probability generating functions.

To introduce students to multivariate distributions. To calculate covariance and correlation of random variables. To derive distributions of functions of random variables.


Morris H. Degroot: Probability and Statistics, 2nd edition,Addison-Wesley Publishing Company.

John A. Rice: Mathematical Statistics and Data Analysis, 2nd edition, Duxbury Press. F. Nabugoomu: Lecture Notes.


Probability spaces and random variables Sample spaces, probability of an event, independent events, conditional probabilities, random variables and distribution, expectations of random variables. The Normal distribution, The Gamma distribution, The Beta distribution.

Generating FunctionsMoments, moment generating functions, probability generating functions, applications to common distributions

Multivariate distributions Joint distributions, conditional distributions, covariance and correlation, conditional expectations


Distributions of functions of random variables The distribution function technique, the Jacobian technique, the generating function technique, applications to sums, differences, products and quotients of random variables, order statistics: Maxima, minima and the range.

Limiting Theorems Chebyshev Inequality, the Law of Large Numbers, the Central Limit Theorem.

MTH 2103: Ordinary Differential Equations, 3CU Pre-requisites: MTH1201

Course DescriptionThis course introduces the student to various methods for solving first order and second order differential equations and difference equations. The course also covers methods used in power series solutions for the first and second order differential equations and linear equations of nth order. Systems of differential equations are also covered. Applications in Physics, Ecology, Environment and Biology are given.

Course ObjectivesThis course is intended to:

Introduce the students to the methods of formulation of differential equations Give students skills of solving ordinary differential equations


Text recommended by the course lecturer Notes prepared by the lecturer R. Rainville, Elementary Differential Equations Mugisha, J.Y.T, A Course in Ordinary Differential Equations.


First Order differential equationMeaning of a differential equation, definition of terms, solution to a differential equation. Separation of variables, exact equations, test for exactness, first order linear and integrating factor, equation with homogeneous coefficients, equation with linear coefficients, special first order equations: the Bernoulli equation. Different examples from different fields on how to form and solve first order differential equation: the Newton law of cooling, economics models, population growth models, falling bodies, chemical mixture, radioactive decay, evaporation law

Second order and Higher order differential equationsLinear dependence and the Wronskian, theorems on general solution, Abel’s formula, order reduction and their application to solving higher order differential equations. Solution to higher order equation: Equations with constant coefficients, the inverse operator method, the auxiliary equation method. Solving nonhomogeneous equations, the methods of undetermined coefficients and variation of parameters. Special higher order equations: the Cauchy-Euler equation Power Series Solution


Basic power series concepts, convergence of a power series and radius of convergence, ordinary and singular points of a differential equation, power series solution about an ordinary point, power series solution near a singular point, the Frobenius method

Systems of first order linear differential equationReducing a higher order equation to a system of first order differential equations and vice versa, solving the system by elimination method. The matrix method, eigenvalues method. Solving non homogeneous system of first order equations by method of undetermined coefficient and variation of parameters

Introduction to difference equationsDefinition of a difference equation and terminology. Solution to first order difference equations, introduction to second order constant coefficient equation, linear dependence and the Casoratian

MTH 2104: Linear Algebra II, 3CUPre-requisites: MTH1102

Course DescriptionThe course in Linear Algebra II is both skill and application oriented. Having discovered at the end of Linear algebra I that all matrices were not diagonalizable, the course sets out to find the next best thing that could be done for such matrices.

Course ObjectivesBy the end of the course, the student should be able to:

demonstrate basic competence in the concepts, principles, procedures and applications of linear transformations

explain matrix representations of linear transformations. transform matrices of linear mappings from one basis to another explain canonical forms and the invariant subspace decomposition of linear maps. solve problems of approximations in inner product spaces.


Text recommended by the course lecturer Notes prepared by the lecturer Howard Anton; Elementary Linear Algebra Seymour Lipschutz; Theory and Problems of Linear Algebra


Further Linear transformationsThe theory of matrix representations of linear transformations, linear functionals, duals, singularities.

Canonical FormsElementary canonical forms: characteristic values, annihilating polynomials, Cayley-Hamilton Theorem, invariant subspaces, diagonalization. LU, LDLT LDU, PA=LU factorizations, direct sum decomposition, invariant direct sum, Primary Decomposition Theorem.Rational and Jordan Canonical forms: cyclic subspaces and decompositions, invariant factors, companion matrices.


Applications to bilinear formsSymmetric and skew symmetric forms, matrix representations, rank and signature.

Inner Product SpacesInner products in the Euclidean space, projections, Cauchy-Schwarz Inequality, Least squares, Gram-Schmidt orthogonalizations, QR- factorization, systems of differential equations.

MTH 2105: Classical Mechanics I, 3CU [ Detailed course outline not submitted]Pre-requisite: MTH1201

Course DescriptionThe course in Classical Mechanics I is an introductory course to the Newtonian mechanics of the dynamics of a particle and systems of particles. The course covers Newton’s laws of motion and their application to stationary and moving bodies such as falling bodies, projectiles and oscillatory motion.

Course ObjectivesBy the end of the course the student should be able to:

- Explain concepts of the mechanics of a particle and systems of particles such as velocity, acceleration, relative velocity, line integral, gradient, divergence and curl of a vector, momentum, work, kinetic /potential energy, conservative forces, stability of equilibrium, centre of mass, virtual work

- Solve problems on motion of a particle; in a uniform force field, as a projectile, in a resisting medium, constrained by friction or otherwise

- Solve problems on simple, damped and forced oscillatory motion and the simple pendulum

- Solve changing mass problems

Reading listThe reading List will include but is not limited to the following list:

Murray R Spiegel, Theory and practice of theoretical mechanics (Schaum’s series) F. Baryarama and J.M.Mango. Classical Mechanics, Institute of Adult and Continuing

Education – Makerere University

Detailed Course Outline [not submitted]

MTH 2201: Group Theory, 3CUPre-requisites: None

Course DescriptionThis course is meant to develop the ability to think abstractly, make conjectures and construct rigorous mathematical proofs. It brings to light the basic philosophy, purpose and history behind the development of groups as abstract algebraic structures. It makes one understand how mappings can preserve algebraic structure, and through such mappings, learn how to determine when two seemingly different algebraic structures turn out to be the same (isomorphic).


Course ObjectivesBy the end of this course, the student should be able to:

distinguish a group from other algebraic structures draw a Cayley table for any group state and prove the Lagrange’s theorem define cyclic groups and Abelian groups define conjugacy, centralizers, the centre, normalizers and normal subgroups State and prove the Isomorphism theorems State and prove the fundamental theorem of finite Abelian groups State and prove Sylow’s theorems Define simple and soluble groups.


Fraleigh, J.B. (1989). A First Course in Abstract Algebra. Addison-Wesley Kasozi, J. (2003). Abstract Algebra I: Groups. Department of Distance Education, IACE,

Makerere University. Herstein, I.N. (1990). Abstract Algebra. Macmillan Publishing Company.


Elementary Set Theory Sets, Relations, Mappings

Theory of groupsBinary operations, groups, The Cayley (multiplication) table, group properties, subgroups, order of a group, order of an element, cosets, Lagrange’s theorem, cyclic groups, and lattice diagrams.

Permutation groupsDefinition of a permutation, the symmetric group, cycles, transpositions, the alternating group, dihedral groups, and group actions.

Normal Subgroups and Homomorphisms Conjugacy in groups, centralizer, the centre, normalizer, normal subgroup, homomorphisms, the image of a homomorphism, and the kernel of a homomorphism.

Quotient Groups and Fundamental Theorems Quotient groups, the isomorphism theorems, Sylow’s theorems, Cauchy’s theorem, simple groups, and soluble groups.

MTH2202: Complex Analysis, 3CUPre-requisites: MTH2101

Course DescriptionComplex analysis is the branch of mathematics that investigates functions of complex numbers, that is, functions whose independent and dependent variables are both complex numbers. The course extends concepts from the analysis of real valued functions to complex functions. Complex Analysis is of enormous practical use in applied mathematics and in Physics.



Extend concepts of analysis of real variables to complex numbers likes sequences and series.

Differentiate and Integrate Complex functions. Carry out contour Integration. State and prove the Fundamental Theorem of Calculus. State and provide various proofs of the Fundamental Theorem of Algebra. Compute integrals using residues. Apply techniques of Complex analysis to summation of series Apply conformal mappings to problems from physical sciences.

Reading ListThe reading list will include but is not limited to the following texts.1. A. David Wunsch, Complex Variables with Applications, 2nd Edition2. Ruel V. Churchill and James Ward Brown, Complex Variables and Applications, 4th Edition.3. Saff, Edward B., and Arthur David Snider. Fundamentals of Complex Analysis with Applications to Engineering, Science, and Mathematics. 3rd ed. Upper Saddle River, NJ: Prentice Hall, 2002. ISBN: 0139078746.4. Lecture Notes prepared by the course instructor.Detailed Course Outline

Complex Numbers and FunctionsReview of Complex numbers, Polar and Cartesian forms, powers and roots, subsets of the complex plane, complex limits, complex derivatives, The Cauchy-Riemann equations.

Analytic and harmonic functionsComplex analytic functions, Real and imaginary parts of analytic functions, harmonic functions, harmonic conjugates, complex maps, Translation, rotation, dilation and inversion, Mobius maps, Mobius Transforms.

The Basic Transcendental FunctionsThe exponential function, trigonometric functions, hyperbolic functions, the logarithmic function, complex exponentials, inverse trigonometric and hyperbolic functions, branch points and branch cuts.

Contour IntegrationCurves and contours, contour integration, Fundamental Theorem of Calculus, the Cauchy-Goursat theorem, Cauchy Integral formula, Mean Value principle, Louville’s principle; Fundamental Theorem of Algebra.

Infinite seriesPower series, Taylor series, Laurent series, zeros and poles, the point at infinity residues and their application in integration.

Conformal MappingsThe conformal property, bilinear transformation, conformal mapping and boundary value problems, The Schwarz-Christoffel Transformation.

MTH 2203: Numerical Analysis I, 3CUPre-requisites: MTH1102, MTH12001

Course Description:


Numerical Analysis plays an indispensable role in solving real life mathematical, physical and engineering problems. Numerical computations have been in use for centuries even before digital computers appeared on the scene. Great Mathematicians like Gauss, Newton, Lagrange, Fourier and many others developed numerical techniques. Numerical analysis is an approach to solving complex mathematical problems using simple approximating operations and carrying out an analysis on the resulting errors. In this course, we cover the following areas of Numerical analysis: finite differences, interpolation, differentiation, integration, solution of non-linear equations and solution of a system of linear equations.


Interpolate data Carry out numerical integration and differentiation Solve non-linear equations and systems of linear equations using numerical techniques. Write codes for simple numerical analysis algorithms

Reading listThe reading list will include but is not limited to the following texts.

Froberg C.E (1994); Introduction to Numerical Analysis. Addison-Wesley. Richard L. Burden et al (1989): Numerical Analysis (second edition) prindle, Weber and

Schmidt. Boston, Massachusetts. Oates. P.J. et al (1981); Numerical Analysis, Edward Arnold (Publishing) Ltd. J. Mango: Introduction to Numerical Analysis, IACE, Makerere University. E.M.Kizza: Lecture notes in Numerical Analysis. Mathematics Department, Makerere

University.


Introduction to one of the high level languages e.g. Matlab, Maple, Fortran

Finite DifferencesForward finite difference operator, backward finite difference operator, central finite difference operator, averaging operator, shift operator.

InterpolationDefinition of interpolation, finite difference Interpolation, finite difference tables, Newton’s forward difference interpolating polynomial, Newton’s backward difference interpolating polynomial.Lagrange interpolation, linear, quadratic and higher degree Lagrange interpolating polynomials, error analysis in Lagrange interpolating polynomial.Divided difference interpolation, definition of a divided difference, Newton’s divided difference interpolation, codes for interpolation.

Numerical DifferentiationWhy numerical differentiation, numerical differentiation using finite differences, derivatives using Newton’s forward formula, derivatives using Newton’s backward difference formula. Error Analysis in numerical differentiation.

Numerical integrationTrapezoidal rule, Simpson’s rule, analysis of errors in Trapezoidal and Simpson’s rule, computer codes for the algorithms learnt.

Numerical solution of non-linear equationsBisection method, secant method, fixed point/Iteration/successive substitutions, Regular false, Newton Raphson’s method, computer codes for the algorithms learnt.


Numerical solution of a system of linear equationsDirect methods, Gaussian Elimination, Triangular decomposition, Cholesky’s decomposition, Iterative techniques, Jacob and Gauss Seidel, convergence analysis of iterative methods

MTH 2204: Statistical Inference I, 3CUPre-requisites: MTH2102

Course DescriptionThe course starts with a review of some topics from probability theory e.g. moments and moment generating functions. It then launches into sampling theory with consideration of distributions related to the normal distribution viz t, Chi-square and F. Emphasis is on parameter estimation and hypothesis testing with applications. Methods of point and interval estimation and properties of estimators are considered. In the last part of the course Chi-square tests for goodness of fit and for independence as well as the Fisher’s exact test are considered with applications to data. Finally an introduction to linear regression analysis is given.

Course ObjectivesBy the end of this course students should be able to:

Differentiate between parametric and non-parametric statistical inference. State the properties of various discrete and continuous distributions. Derive distributions of the sample mean and sum of random variables using the moment

generating function technique. Derive the t, Chi-square and F distributions and state their usefulness in sampling theory. Calculate point and interval estimates of parameters. Assess whether estimators satisfy the properties of good estimators. Perform hypothesis tests with applications. Apply the acquired tools to real life data by making inferences about properties of the

distribution where the data is thought to have been drawn and to determine the likelihood that the distribution is the correct one.

Test for goodness of fit using the chi-square test. Test for independence of variables using the chi-square test and fisher's exact test. Use a statistical package e.g. S-Plus and/or R for data analysis particularly regression

analysis. Fit a simple linear regression model and interpret the results. Perform non-parametric statistical inference.

Reading ListThe reading list will include but is not limited to the following texts. Notes prepared by the lecturer. An Introduction to Mathematical Statistics and its Applications by Larsen, R. J. and Marx, M.

L. Mathematical Statistics by Freund, J. E. Probability and Statistics by Degroot, M. H. Mathematical Statistics and Data Analysis, 2nd Edition by Rice, J. A. Introduction to Linear Regression Analysis, 2nd Edition, Wiley, 1992.

by Montgomery, D.C. & Peck, E.A. Applied Linear Regression, 2nd Edition, Wiley, 1985, by Weisberg, S. Modern Applied Statistics with S, 4th Edition, Springer, 2003 by Venables, W.N. & Ripley,

B.D.



Part IA. Sampling from the normal distributionSampling distributions, Chi-square, t, and F distributions. Distribution of the sample mean and sample variance.

Part IIA. Parameter estimationProperties of estimators: Unbiasedness, Consistency; consistency in probability, mean square error consistency; Minimum variance criterior, Cramer-Rao's inequality, Sufficiency; factorization theorem.

B. Methods of point estimationMoments, Least squares, Maximum likelihood. Applications to common distributions.

C. Confidence interval estimationOne parameter case, application to sampling from nomral population. Estimation of mean and variance for one and two samples.

Part IIIHypothesis testingNull and alternative hypothesis, simple and composite hypothesis, critical regions, power and size of a test, best critical region, simple likelihood ratio test, most powerful test, applications to simple cases - normal distribution.

Part IV: A. Chi-square testContingency tables, goodness of fit test, fisher's exact test.

B. Linear RegressionRelationships between variables, transformations to linearity, residual and regression sums of squares, analysis of variance in simple linear regression.

MTH 2206: Mathematical LogicPre-requisites: None

Course DescriptionMathematical logic is a discipline within mathematics, studying formal systems in relation to the way they encode intuitive concepts of proof and computation as part of the foundations of mathematics. Contrary to what one may think mathematical logic is not the logic of mathematics, but more closely resembles the mathematics of logic. It comprises those parts of logic that can be modelled mathematically.


Explain the concepts, principles, procedures and applications of mathematical logic Explain the reasoning behind mathematical proofs and methodology Model real life problems using concepts of set theory and mathematical logic State computable and non-computable functions


Text recommended by the course lecturer


Notes prepared by the lecturer J. Barwise and J. Etchemendy, Language, Proof and Logic. Seven Bridges Press, New

York, 2000. ISBN 1-889119-08-3 Martin Davis, Computability and Unsolvability, McGraw-Hill, New York, 1958. Herbert B. Enderton, A Mathematical Introduction to Logic, Academic Press, New York,

1972.

Course Outline

Basics of propositional Logic Axiomatic system for propositional calculus, modus ponens, deduction principle, completeness, consistency.

Basics of first-order logic (Predicate Calculus)Variables, constants, predicate letters, function letters, terms axiomatic formulae, well formed formulae, quantifiers, free and bounded variables. Interpretations, truth models, satisfiability, logically valid proofs, logical implications, logical consequence. First order axioms, proper axioms, inference rules and their restrictions, deduction principle.

Computability using turing machines and recursive functionsDefinitions and notation, examples of the turing machines at work.

Gödel’s Incompleteness Theorems

Computable and non computable functions

MTH3101: Functional AnalysisPre-requisites: MTH2101, MTH2104

Course DescriptionFunctional analysis is the branch of mathematics concerned with the study of spaces of functions. This course is intended to introduce the student to the basic concepts and theorems of functional analysis and its applications.

Course ObjectivesBy the end of this course, students should be able to:

describe properties of normed linear spaces and construct examples of such spaces extend basic notions from calculus to metric spaces and normed vector spaces state and prove theorems about finite dimensionality in normed vector spaces state and prove the Cauchy-Swartz Inequality and apply it to the derivation of other

inequalities distinguish pointwise and uniform convergence prove that a given space is a Hilbert spaces or a Banach Spaces describe the dual of a normed linear space apply orthonormality to Fourier series expansions of functions state and prove the Hahn-Banach theorem

Reading ListThe reading list will include but is not limited to the following texts.1. E. Kreyszig, Introductory Functional Analysis with Applications, John Wiley & sons2. N. Dunford and J. T. Schwartz, Linear Operators, General Theory,



Metric SpacesDefinitions of metric spaces and examples, open sets, closed sets, neighbourhoods, convergence of sequences, Cauchy sequences, completeness

Normed SpacesDefinition of normed space and examples, properties of normed spaces, Banach spaces, finite dimensional normed spaces, subspaces, linear operators, bounded linear operators, linear functionals, linear operators and linear functionals on finite dimensional spaces, normed space of operators, dual space.

Inner product SpacesDefinition of inner product space and examples, properties of inner product spaces, Hilbert spaces, orthogonal complements and indirect sums, orthogonal sets and sequences, total orthonormal sets and sequences, representation of functionals on Hilbert space.

Fundamental Theorems of Functional Analysis and their applicationsZorn’s Lemma, Hahn Banach Theorem, Uniform Boundedness Theorem, Open Mapping Theorem, Closed Graph Theorem.

MTH3102: Numerical Analysis II, 3CUPre-requisites: MTH3102

Course DescriptionThis course is continuation of the Numerical Analysis I course. In this course we cover the following areas: Orthogonal functions, Gauss Quadrature rules, approximation theory, numerical solution of ordinary differential equations and solutions of partial differential equations.

Course ObjectivesBy the end of this course the student should be able to:

Define an orthogonal Sequence of functions and use orthogonal functions in integration Approximate discrete data or continuous functions by least squares Solve ordinary differential equations by common numerical techniques Approximate a solution of a partial differential equation by finite differences Write computer codes for the Gauss – Quadrature rules and the techniques for solving

ordinary and partial differential equations.

Reading List

Curtis F.G and Patric O. W. Applied Numerical Analysis. Addison – Wesley Publishing Company, Reading Massachusets.

David R. and Ward C : Numerical Analysis, Books/Core Publishing Company, Pacific Carove, California.

Sydney Yakowitz, Forenc Szidarovszky. An Introduction to Numerical Computations, Macmillan Publishing Company, New York. Michael A. C and William G.G (1912) Numerical Methods for differential equations,

Englewood Cliffs, New Jersay. Richard L. Burden (1989), Numerical Analysis, Prindle, Weber and Schmidt. Boston

Maassachusetts.


Orthogonal Functions


Definition of a Sequence of orthogonal functions, Legendic functions, Tchebyshev functions, Hermitian functions, Laguerre functions.

Gauss - Quadrature rulesGauss - Legendre Quadrature, Gauss – Tchebyshev Quadrature, Gauss - Hermite Quadrature, Gauss - Laguerre Quadrature. Error Analysis in Quadrature rules, Computer codes for Gauss- Quadrature rules.

Approximation TheoryLeast squares for under determined systems. Least Squares for continuous functions (the Hilbert matrix). Computer codes for least squares fit.

Numerical Solution of ordinary differential equationsTaylor series method. Eulers method. Runge Kutta second and fourth order processes. Comparison of numerical and analytic solutions of ordinary differential equations.

Numerical solution of partial differential equationsWhy numerical techniques for spdes. Classification of partial differential equations. Computational molecules for partial derivatives. Crank-Nicholson technique. Finite difference techniques for parabolic, elliptic and hyperbolic problems.

MTH 3103: Biomathematics, 3CUPre-requisites: MTH1102, MTH2103

Course DescriptionThis course is concerned with formulation, analysis and interpretation of mathematical models in biology, ecology, environment, epidemics and Bioeconomics. In ecology and environment, problems concerning distribution and abundance of populations and community dynamics are dealt with. It has an introduction to mathematical epidemiology focusing on prevention, control and eradication strategies to achieve possible steady states. Examples of common diseases are highlighted. Bioeconomics deals with exploitation of resources, harvesting in fisheries and forests. The models aim at maximizing profits and reducing losses.


To equip students with skills and techniques of model formulating, analysing and interpreting mathematical models in Biology, Ecology, Epidemics, etcetera.

Reading ListThe reading list will include but not limited to the following texts.

Text recommended by the course lecturer Notes prepared by the lecturer Ecology: Experimental Analysis of Distribution and Abundance by Krebs, J Charles ISBN:

0321068793 Infectious Diseases of Humans by ROY M. Anderson and Robert M. MAY, Oxford Press,

ISBN: 019854599-1 Mathematical Biology by J.D. Murray, Spring-Verlag, Berlin ISBN:354057204 Mathematical Models in Population Biology and Epidemiology by Fred Brauer & Carlos

Castillo-Chavez, ISBN: 0-387-98902-1, Springer Verlag, NewYork.


Diffusion and Ecological Problems, Modern perspectives by Akira Okubo & Simon Levin, ISBN: 038798676-6, Springer Verlag NewYork

Understanding Non-linear Dynamics by Daniel Kaplan and Leon Glass ISBN: 0-387-94423-0, Springer Verlag NewYork

Mathematical Models in Biology by Elizabeth S. Allman & John A. Rhodes, ISBN:0-521819806, Cambridge University Press.

Modelling and Simulation in Medicine and the Life Sciences (2nd Ed), Theoretical Introduction, by Warren J. Ewens, ISBN: 0-387-20191-2, Springer Verlag, NewYork.

Lecture Notes in Biomathematics, L. S. Luboobi, Department of Mathematics, Makerere University


Why Model? Model building, methods of analysisGive various examples of a good model, stages of model building, expected methods for analyzing the models

Discrete Population ModelsIntroduction to difference equations. Examples of discrete models and their analysis

Continuous Population ModelsSingle species and multi-species models and their analysis

BioeconomicsExamples of forest and fisheries exploitation models

Introduction to Mathematical Epidemiology Notation, model building, interpretation, terminology, examples of common diseases, drug administration models

MTH3104: Dynamical Systems, 3CUPre-requisites: MTH1201, MTH2103

Course DescriptionA dynamical system is a concept in mathematics where a fixed rule describes the time dependence of a point in a geometrical space. The mathematical models used to describe the swinging of a clock pendulum, the flow of water in a pipe, or the number of fish in a lake is examples of dynamical systems. A dynamical system has a state determined by a collection of real numbers. Small changes in the state of the system correspond to small changes in the numbers. The course describes the theory of dynamical systems in one and two dimensions. The main areas include bifurcation theory, chaos, attractors, limit cycles, non-linear dynamics.

The following are the major topics:

Brief review of differential equations (first order and linear systems) Introduction to discrete and continuous dynamical systems Classification of fixed points of discrete and continuous non-linear systems Periodicity and chaos in non-linear systems


Identify fundamental differences between linear and nonlinear dynamical systems. Construct and interpret phase portraits of maps and flows in one and two dimensions. Identify fixed points and periodic points and determine their stability.


Understand elementary bifurcations. Understand characterizations and measurements of chaos such as sensitive dependence

on initial conditions and Lyapunov exponents. Use symbolic dynamical systems and conjugacy to analyse maps. Explain how fractals arise from dynamical systems. Use potential functions to analyse flows. Understand limit sets and attractors. Use software to simulate and study dynamical systems in one and two dimensions.

The reading list will include but is not limited to the following texts.

Differential Equations and Dynamical Systems (Second Edition) by Lawrence Perko, published by Springer (1996);

Nonlinear Dynamics and Chaos with Applications to Physics, Biology, Chemistry and Engineering by Steven H. Strogatz, published by Addison Wesley (1994).

Dynamical Systems by D.K. Arrowsmith and C.M. Place (Chapman and Hall 1992). It has a good chapter on higher dimensional systems, plus a chapter on examples and bifurcations.

Order within chaos by Pierre Berge, Yves Pomeau and Christian Vidal (John Wiley 1984) An introduction to Chaotic Dynamical Systems by Robert Devaney ((Addison-Wesley

1989). Dynamics and Bifurcations by J. Hale and H. Kocak (Springer 1991) Differential Equations, Dynamical Systems and Linear Algebra by Morris W.Hirsch and

Stephen Smale, (Academic Press 1975). A great classic. In principle an entry level book both for Ordinary Differential Equations and Linear Algebra, it goes fast and deep and covers much of the material we will be covering.

A First Course in Discrete Dynamical Systems (Second Edition) by Richard A. Holmgren (Springer 1996).

Differential Equations: A Dynamical Systems Approach, Parts I and II by J.H. Hubbard and B.H. West (Springer 1995). Part I is an entry level text; Part II covers much of what we will be covering.

Nonlinear Dynamics and Chaos by J.M.T. Thompson and H.B. Stewart (John Wiley 1986). Very similar to Strogatz, but at a more advanced level.


Review of Differential Equations: Brief review of differential equations (first order and linear systems) and linear algebra (eigenvalue problems. exponential of a matrix, Fundamental Matrix Solution); quantitative versus qualitative behaviour of differential equations.

Discrete and Continuous Systems: One-dimensional discrete and continuous systems; matrix approach to higher dimensional discrete systems and continuous systems (systems of linear differenctial equations); phase plane analysis and phase portraits; periodic solutions; bifurcations; Using Maple.

Classification of fixed points: Discrete and continuous non-linear systems; stability; linearization; almost linear systems; limit cycles; predator-prey and competitive species examples; non-linear pendulum; failure of linearization; Lyapunov functions and exponents; gradient systems.

Periodicity and chaos in non-linear systems: Poincare-Bendixon theorem; chaos in the Lorenz system and the butterfly attractor; analysis of discrete systems; period-doubling route to chaos; Using Maple to plot "staircase" diagrams and orbits of maps. Sarkovskii's theorem and the Yorke-Li special case (period 3 implies chaos); symbolic dynamics and shift maps.


Fractals and Cantor Sets: Fractals; Cantor set; symbolic dynamics of the Cantor set; Cantor set as a fractal and as an attractor for a one-dimensional non-invertible discrete map; Sierpinski's triangle and carpet; Koch snowflake curve. Contraction mapping theorems and metric spaces; fractals as fixed "points" (attractors) of iterated function systems; algorithms for drawing fractals; the chaos game; fractal dimension; Barnsley's fractal fern.

Complex dynamical systems (complex variables): Julia sets; escape-time algorithms; Mandelbrot set; fractals from Newton's method; fractals from complex number bases.

MTH 3105: Discrete Mathematics, 3CUPre-requisites: None

Course DescriptionDiscrete mathematics is sometimes called finite mathematics. It is the study of mathematical structures that are fundamentally discrete, in the sense of not supporting or requiring the notion of continuity. Most of the objects studied in finite mathematics are countable sets, such as the integers. Discrete mathematics has got many interesting applications to computer science. Concepts and notations from discrete mathematics are used to study or express objects or problems in computer algorithms and programming languages

Course ObjectivesUpon completion of this course, the student should be able to:

determine the validity of a given argument; apply the concepts of set theory to problems which involve set operations, cardinality,

and counting techniques; apply the concepts of number theory to problems involving arithmetic operations; apply the concepts of relations and functions to problems involving recursion, sequences

and set equivalence; use the theory of graphs to solve problems in applied mathematics.


Text recommended by the course lecturer Notes prepared by the lecturer Discrete Mathematics and its Applications Kenneth Rosen, McGraw Hill, 1991 Applications of Discrete Mathematics, J. Michaels and K. Rosen, McGraw Hill Discrete Mathematics, by Ken Ross and Charles Wright, Prentice-Hall, 3rd Ed Discrete Mathematics with Applications, by Susanna Epp, Wadsworth, 1990 Graph Theory Applications, L.R. Foulds, Springer-Verlag, 1992


Fundamentals of Mathematical LogicPropositions and related concepts, conditional and biconditional propositions, rules of inferential logic, propositions and quantifiers, arguments with quantified premises, digital logic design, number systems

Fundamentals of Mathematical ProofsMethods of direct proof, methods of indirect proofs: contradiction and contraposition, method of proof by induction. Elementary number theory and mathematical proofs. The Euclidean algorithm. Induction and the algebra of matrices.


Fundamentals of Set TheoryBasic definitions, properties of sets. Boolean algebra.

Relations and Functions Equivalence relations, partial order relations, functions: definitions and examples, bijective and inverse functions, recursion, applications to relations. Well-ordered sets and lattices, the pigeonhole principle. Countable sets, finite-state automaton.

Introduction to the Analysis of AlgorithmsTime complexity and O-notation, logarithmic and exponential complexities, Θ and Ω notations

Fundamentals of Counting and Probability TheoryElements of counting, basic probability terms and rules, Binomial random variables

Elements of Graph TheoryGraphs, paths, and circuits, trees

MTH 3106: Stochastic Processes, 3CUPre-requisites: MTH1102, MTH2102

Course DescriptionThe course introduces students to stochastic processes starting with definitions of a stochastic process, processes with stationary and independent increments. The Poisson process is singled out as a very useful process and its properties are discussed with applications. Other processes considered are the birth, death and branching processes that are useful in disease modelling. The course winds up by considering the Markov chain: its definition, examples, transition probabilities and classification of the states and of chains. In all sections real life applications are given.

Course ObjectivesBy the end of this course students should be able to: Define a stochastic process. State the properties of a Poisson process. Apply Poisson processes to real life situations. Estimate mean inter-arrival time and mean waiting time of events. Estimate the expected population size in a birth-death process. Solve difference equations using generating functions. Calculate the probability of extinction and the expected total population in a branching

process. Classify states of a Markov chain. Calculate mean first passage and recurrence times for an irreducible recurrent state Markov

Chain. Appreciate the range of applications and be able to model appropriate real life problems in

terms of a stochastic process.

Reading ListThe reading list will include but is not limited to the following texts. Notes prepared by the lecturer. Introduction to Probability Models by Sheldon M. Ross, seventh edition. Stochastic Processes: An Introduction by PW Jones, P. W. and Smith, P. Stochastic Processes by J. Medhi, second edition. An introduction to Stochastic Modeling by H. M. Taylor and S. Karlin.


The Elements of Stochastic Processes with applications to the Natural Sciences by N. T. J. Bailey.


Introduction: specification of stochastic processes with independent increments, stationary processes and Markov processes.

Poisson processes: axioms and properties of Poisson processes, homogeneous Poisson process, Poisson process and related distributions|: inter-arrival time and waiting time distributions. Compound Poisson processes and non-homogeneous Poisson process.

Birth and death processes: Pure birth, pure death and simple birth-death processes.

Branching processes: Properties of generating functions of branching processes, probability of extinction, distribution of total number of progeny.

Markov Chains: Introduction, definitions and examples, transition probabilities, higher transition probabilities: - Chapman-Kolmogorov equations, first passage and recurrence times, classification of states and of chains. MTH3201: Calculus of Several Variables, 3CUPre-requisites: MTH1201

Course DescriptionThis course is about functions of several variables – their limits, continuity, differentiability, integrability and applications of these. The treatment is not rigorous.

Course ObjectivesThis course is intended to introduce the student to the calculus of functions of several variables and empower the student to apply it to solve real life problems.

6. Reading ListThe reading list will include but is not limited to the following texts.

1. Dennis D. Berkey and Paul Blanchard, Calculus, Saunders College Publishing.2. Howard Anton, Multivariable Calculus, John Wiley and Sons3. Jerrold E. Marsden, Basic Multivariable Calculus, 4. Any other relevant textbooks, websites and resources in the library or else where.


Functions of several variables, Partial derivatives and differentiabilityFunctions of two or more variables, limits and continuity, partial derivatives, differentiability, chain rules, tangent planes, total differentials, directional derivatives, gradients, maxima and minima, Lagrange Multipliers.

Multiple IntegralsDouble integrals over a rectangle, double integral over more general regions, double integral in polar coordinates, surface integrals, triple integrals, triple integrals in cylindrical and spherical coordinates, change of variables, Jacobians.

Topics in Vector Calculus


Vector fields, Line integrals, Independence of Path; conservative vector fields, Green’s Theorem, Introduction to surface integrals, surface integrals of vector fields; flux, The Divergence Theorem, Stokes’ Theorem.

MTH 3202: Transform Methods and Partial Differential Equations, 3CUPrerequisites: MTH2103

Course DescriptionThis is an applied mathematics course in which advanced methods are used to solve problems in Physics, Engineering, Environment, Ecology, Epidemiology and other related fields. It is helpful in the solution of dynamical systems, which virtually appear in every field of science, from oscillating reactions in chemistry to the chaotic circuits in electrical engineering and motions in celestial mechanics. The course also gives the basic theory of PDEs with examples of where these methods come from and how they work.


To provide methods for solving differential equations arising in physical sciences models together with their formulation

To help students use transform methods to solve ordinary and partial differential equations

To enable students explain the mathematical formulation of PDEs and their application


Text recommended by the course lecturer Notes prepared by the lecturer Miller R. Introduction to Differential Equations, Prentice Hall Inc.


Fourier Series and Fourier TransformsBasic principles, orthogonal forms, sine and cosine transforms, complete and complex forms Laplace TransformExistence and operation rules, application in solving differential equations, integral equations, difference equations, delay differential equations, systems of differential equations

The Z-transformExistence and operation rules. Application to solving differential equations

The Theory and solutions to Partial Differential EquationsDefinitions, One Dimensional wave equation, heat equation, Laplace and Bessel equation. Canonical forms, equations with constant coefficients, general solution. Cauchy Problem and Cauchy-Kowalelewsky Theorem. Homogeneous wave equation and IVPs. Method of Separation of Variables. Eigenvalues problems and special functions, Sturm-Liouville Systems, eigenvalue and eigenfunctions and expansions. Boundary value problems

MTH3203: Linear Programming, 3CUPre-requisites: MTH1102


Course DescriptionThis course introduces modelling of practical problems using linear mathematical methods. Solutions to the linear models are sought using geometrical methods and the simplex algorithm. Response of the solution to small perturbation is analyzed.


formulate linear models from a given problem solve a two variable problem using geometrical methods demonstrate knowledge of the constraint set solve the problem using the simplex method solve problems using dual simplex and the primal dual methods analyze the solution to the problem for sensitivity


Text recommended by the course lecturer Notes prepared by the lecturer Lecture Notes of Mathematical Programming, L.S. Luboobi


The general linear programming (LP) problemThe algebra and geometry of LP models.

Geometric solution of LP problemsBasic and optimal solutions to an LP problem. The constraint set as a convex polytope. The connection between the extreme points of the constraint set and the basic solutions.

The simplex method: The derivation of the conditions for the existence and optimality of the solution. The initial basic solution; the big-M (penalty) method. The two phase simplex method. The dual problemsDual simplex algorithm, the properties of duality. The mutual primal-dual simplex algorithm.

Post optimality analysisInvestigation of how changes in the objective function and the constraints of an LP problem would affect the current optimal solution.

MTH3204: Classical Mechanics II, 3CU [Detailed Course Outline not submitted]

Pre-requisite: MTH2105, MTH2103

Course DescriptionThis course is a continuation of Classical Mechanics I. The course covers motion of a particle in moving and rotating axes and orbital motion using polar coordinates and introduces rigid body dynamics and analytic mechanics.



Use polar coordinates to find velocity, acceleration and angular momentum of a particle moving in an inertial frame

Use the reciprocal coordinate method to solve orbital motion equations State, prove and apply Keplar’s laws (and other laws) of planetary motion Formulate and solve rigid body problem for moments of inertia, angular momentum and

kinetic energy Solve problems using Langrage equations and Hamilton functions

Reading ListThe reading list will include but is not limited to the following:

H. Goldstein (1980 ). Classical mechanics, Addison-Wesley Publishing Company F. Baryarama and J.M.Mango. Classical Mechanics, Institute of Adult and Continuing

Education – Makerere University F. Chorlton (1983). Textbook of Dynamics (2nd edition), Ellis Horwood Limited.

Detailed Course Outline [not submitted]

MTH3205: General Topology, 3CUPre-requisites: MTH2101

Course DescriptionThis course is about the study of elementary properties of topological spaces. Topological spaces turn up naturally in mathematical analysis, abstract algebra and geometry. A topological space is a structure that allows one to generalize concepts such as convergence, connectedness and continuity.


To introduce the student to elementary properties of topological spaces and structures defined on them

To introduce the student to maps between topological spaces To develop the student’s ability to handle abstract ideas of Mathematics and

Mathematical proofs

6. Reading ListThe reading list will include but is not limited to the following texts.

1. James Munkres; Topology; ISBN 0-13-181629-22. John Kelley; General Topology; ISBN 0-387-90125-63. Lynn Steen & Arthur Seebach; Counterexamples in Topology; ISBN 0-486-68735-X


Set Theory and LogicFunctions, relations, Cartesian products, finite sets, countable and uncountable sets

Topological spaces and continuous functionsTopological spaces, basis for a topology, the order topology, the product topology, the subspace topology, closed sets and limit points, continuous functions, the quotient topology.

Connectedness and Compactness


Connected spaces, connected sets in the real line, components and path components, compact spaces, compact sets in the real line

Countability and Separation axiomsThe countability axioms, the separation axioms, The Urysohn’s lemma. The Tietze extension theorem.

MTH 3206: Advanced StatisticsPre-requisites: MTH2204

Course DescriptionThe course introduces students to regression models for data analysis and extends the methods to handle non-normal data. Particular attention is given to data that can be modeled by generalized linear models.

Course ObjectivesThe course aims at:

Illustrating inference methods based on the exponential family of densities. Introducing students to methods of analyzing data within the framework of generalized linear

models. Illustrating the methods with data from real life problem.

Reading ListThe reading list will include but is not limited to the following texts. Notes prepared by the lecturer. An introduction to generalized linear models by Dobson, J. A.


Exponential family of densities. Definition and properties.

Maximum likelihood estimation. Score vector and information matrix, asymptotic properties of ML estimators (no proofs), score and likelihood ratio tests.

Regression modelsEstimation and tests of hypothesis, diagnostics for model fit.

Generalised linear models. Special cases: Poisson and binomial errors.Estimation of parameters and tests of hypothesis, assessing goodness of fit, logistic and log-linear models.

MTH 3207: Introduction to Mathematical Epidemiology, 3CUPre-requisites: MTH2103

Course DescriptionThis course introduces students to epidemiological modelling of endemic and pandemic diseases. Models on sexually transmitted diseases such as gonorrhoea, syphilis, HIV/AIDS and the like are considered. Models on vector/parasite transmitted diseases like malaria, Schistosomiasis are


also considered. In-host pathogen dynamics, computer simulation is done to get numerical and graphical solutions to these models.


To give students an introduction to applications of Mathematics to Biomedical processes To equip students with skills and techniques of model formulation, analysis and

interpretation in biomedical research


Text recommended by the course lecturer Notes prepared by the lecturer Infectious Diseases of Humans by ROY M. Anderson and Robert M. MAY, Oxford Press,

ISBN: 019854599-1 Mathematical Models in Population Biology and Epidemiology by Fred Brauer & Carlos

Castillo-Chavez, ISBN: 0-387-98902-1, Springer Verlag, NewYork Modelling and Simulation in Medicine and the Life Sciences (2nd Ed), Theoretical

Introduction, by Warren J. Ewens, ISBN: 0-387-20191-2, Springer Verlag, NewYork.


Review of simple epidemic modelsRevisit the SIR,SIS,SIRS,SIERS, and incorporate other vital dynamics to model more realistic situations

Models for Infectious diseasesGive up to four examples of these and model at least two together with the class, group the class and give two more as group project (TB, Influenza, Measles, Polio, HIV/AIDS, STDs)

Models for non-infectious diseasesGive up to four examples of these and model at least two together with the class, group the class and give two more as group project (tumour growth, cancer, asthma, diabetes)

Vector/host epidemic modelsMalaria, schistosomiasis, trypanosomiasis, rabies,

Detail examples of within host pathogen dynamicsHIV/AIDS models and immune response, malaria and immune response, chemotherapy and in-host dynamics

Vaccination Models and models for treatment regimes Basic vaccination models, measles, TB, yellow fever etc

Other topics selected from Mathematical PhysiologyMathematical Oncology, Cellular and elementary genetic algebra

MTH 3210: Graph Theory, 3CUPre-requisites: None


Course DescriptionA graph is a set of objects called vertices connected by links called edges. Graph Theory is the study of graphs. There are many structures that can be represented by graphs. These range from road networks to the structure of the Internet. This course will introduce Graph Theory to the student, giving some of the main problems Graph Theory is concerned with, demonstrating the topics of trees and distance, matchings and factors, connectivity and paths, graph coloring, edges and cycles, and planar graphs. The course is useful for those who need to learn to make coherent arguments in the fields of mathematics and computer science.

Course ObjectivesThis course is intended to

Introduce the student to the terminology of Graph Theory Introduce the student to the different types of graphs Introduce the student to the Colouring and Routing problems of Graph Theory.


Text recommended by the course lecturer Notes prepared by the lecturer Graph Theory with Applications (1976) by Bondy and Murty (Online text book)

http://www.ecp6.jussieu.fr/pageperso/bondy/books/gtwa/gtwa.html Detailed Course Outline

Basic conceptsSubgraphs and complements, walks, trails, paths and circuits, connectedness and components of a graph, operations on graphs, cut-vertices and separable graphs, special graphs, Isomorphisms, trees, spanning trees, forests, cutsets and cuts, dense and sparse graphs, matchings.

Eulerian and Hamiltonian GraphsDirected graphs, graphs and relations, directed trees, arboricity, directed Eulerian graphs, acyclic directed graphs, Ramsey theory, hamiltonicity, random graphs, minors.

Matrices of GraphsIncidence matrix, cut matrix, circuit matrix, adjacency matrix, network flows.

ColoringEdge colouring and chromatic number, chromatic polynomials, the four colouring problem.

MTH 3214: Number Theory, 3CUPre-requisites: None

Course DescriptionIn this course, integers are studied with little use of techniques from other mathematical fields. Questions of divisibility, use of the Euclidean algorithm to compute greatest common divisors, factorization of integers into prime numbers, investigation of perfect numbers and congruences belong here. Some important discoveries of this field are Fermat's little theorem, Euler's theorem, and the Chinese remainder theorem. The properties of multiplicative functions such as the Möbius function, and Euler's φ function also fall into this area. The course will take the student through questions in number theory that can be stated in elementary number theoretic terms, but require very deep consideration and new approaches outside the realm of elementary number theory to solve. Examples include:


The Goldbach conjecture concerning the expression of even numbers as sums of two primes.

The twin prime conjecture about the infinitude of prime pairs. Fermat's last theorem (stated in 1637 but not proved until 1994) concerning the

impossibility of finding nonzero integers x, y, z such that xn + yn = zn for some integer n greater than 2.


State axioms about the integers State and apply the principle of finite induction State and prove the division algorithm Define a prime number and locate primes using the sieve of Eratosthenes State and prove the Euclidean algorithm State and prove the fundamental theorem of arithmetic Solve a linear Diophantine equation Solve a linear congruence State and prove the Chinese Remainder Theorem Perform divisibility tests of 2,3,5, 7, 9 and 11 Check errors in strings State and prove theorems of Fermat and Wilson


Burton, D.M (1976). Elementary Number Theory. Allyn and Bacon. Kasozi, J. and Mangheni, P.J. Number Theory. Department of Distance Education,

IACE, Makerere University. (in print) Hardy, G.H and Wright, E.M (1979). An Introduction to the Theory of Numbers. 5th

Edition, Oxford University Press. Detailed Course Curriculum

The Integers Basic properties, summation and products, mathematical induction, divisibility, Primes, Sieve of Eratosthenes, Prime number theorem, Prime producing functions, some conjectures on primes.

GCD and Prime FactorizationGreatest Common Divisor, Euclidean Algorithm, Fundamental Theorem of Arithmetic, LCM, direct factorization method, Fermat factorization, Fermat numbers and primes, Linear Diophantine equation and its solution.

Theory of CongruencesIntroduction to congruences, properties, residues modulo m, Algebra of Congruences, Linear congruences, special congruences, The Chinese Remainder theorem, Systems of Linear congruences, Divisibility tests, check digits, Theorems of Wilson, Euler and Fermat.

Multiplicative Functions The Euler Phi-function, the sum and number of divisors, Perfect numbers and Mersenne primes.

Applications of Number Theory Character or Monographic ciphers.

Practical investigation on micro computers


MTH3215: Algebraic Topology, 3CUPre-requisites: MTH3205

Course DescriptionIn this course tools from abstract algebra are used to study topological spaces. For example, given two topological spaces, a group will be associated with each of the two topological spaces and from the associated groups deductions will be made on the two topological spaces.


To introduce the student to the classification of topological spaces. To introduce the student to fundamental groups, homotopy theory, invariants

Reading ListThe reading list will include but is not limited to the following text.

James Munkres; Topology; ISBN 0-13-181629-2


The Fundamental Group Homotopy of paths, the fundamental group, covering spaces, the fundamental group of the circle. Retractions and fixed points. The fundamental theory of algebra. The Borsul-Ulam theorem. Deformation retracts and homotopy type. The fundamental group of S^n.

Separation Theorems in the PlaneThe Jordan Separation Theorem. The Jordan Curve Theorem. Imbedding graphs in the plane. The winding number of simple closed curve. Cauchy integral formula.

The Seifert-van Kampen Theorem

If time allows Classification of surfaces and Classification of covering spaces can be included.

MTH 3216: Rings and Modules, 3CUPre-requisites: MTH2201

Course DescriptionThis course is a rejoinder to the course MTH 2201 Group Theory, and in a way related to course MTH 3214 Number Theory in some areas. The latter course deals with properties of integers without use of techniques from other mathematical fields (Elementary Number Theory). This course centers on algebraic number theory in which numbers are roots of polynomials with rational coefficients. This course will provide an introduction to commutative ring theory. Students will study familiar concepts, such as factorisation, primeness, divisibility etc., in a new, more general, setting of commutative rings. In addition, the course includes topics from: rings of quotients, finite fields and extensions of fields.



Write elements of a factorisation domain as products of irreducibles Understand the connection between primes and irreducibles in an arbitrary integral

domain Investigate whether an integral domain is a unique factorisation domain. When it is not, to

be able to find essentially different factorisations of a given element and to prove the factorisations essentially different

For an integral domain which is not a unique factorisation domain, to be able to find essentially different factorisations of a given element and to prove the factorisations essentially different

Find greatest common divisors and least common multiples and to decide when they are unique (up to associates)

Prove that an ideal is prime and to write ideals as products of prime ideals

Explain the construction of the ring of quotients of an integral domain and its connection with the construction of the rational numbers

Demonstrate mastery of the concepts by constructing proofs of simple theorems


Reid, M (1995). Undergraduate commutative algebra. Cambridge University Press. Allenby, R.B.J.T (1983). Rings, Fields and Groups. Edward Arnold, London.


RingsRing, subring, commutative ring, ordered ring, inverses, zero element, integral domain.

CongruencesThe ring of integers, ring homomorphisms and isomorphisms, Ideal (left, right, two-sided), the kernel, principal ideal, generator, congruence modulo an ideal, factoring, canonical map.

Integral domains and FieldsField, Field of quotients, Field of Rationals, Reals, extension Field, the Archimedean property, ordered Field.

FactorisationExtended Euclidean Algorithm, the integral domains, unit, primality testing, unique factorization

Rings of polynomialsPolynomial ring F[x], Evaluation homomorphism, divisors in F[x], division algorithm for polynomials, GCD in F[x], monic polynomial, Euclidean Algorithm for polynomials, relatively prime polynomials, irreducible polynomials, prime polynomial, roots and factors, evaluation maps, factor rings in F[x], splitting Field, Field extension, finite Field, factorization of polynomials over a Field.


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