Physics Biophysics - Pécsi Tudományegyetem · 2018-10-15 · Physics-Biophysics 1 lectures Atomic...
27
Physics – Biophysics Introductory lecture
Transcript of Physics Biophysics - Pécsi Tudományegyetem · 2018-10-15 · Physics-Biophysics 1 lectures Atomic...
Physics –Biophysics
Introductory lecture
Contact
[email protected] to write an e-mail?
Subject: test question
Dear Dr. Lukacs,
This is just a test text in order to show how to write a proper e-mail. If you don’t use this format, I won’t read it.
Best regards,
XY
Classes, credits, exams
Lecture/weekPracticals/week
Credit Exam
1st Semester 2 2 4 exam
2nd Semester 4 2 4 final exam
Textbooks
Medical Biophysics
Medicina Press,
Budapest
(available at the Bookstore)
Biophysics practicals
University of Pécs
Medical School, Pécs
(available at the Bookstore)
Recommended materials
Teaching materials can be found on the Departmental website
biofizika.aok.pte.hu for each lecture in pdf format. The files
having the extension „handout” are password protected. The
password is „biophysics”
http://chemwiki.ucdavis.edu/Physical_Chemistry/
Hyperphysics website
hyperphysics.phy-astr.gsu.edu
Chemical principles
Physics - Biophysics 1 lectures
Atomic Physics
Electromagnetic radiation, Electromagnetic spectrum
Foundations of quantum physics
Structure of the atom
Quantum numbers. Spin
X-rays
X-ray diffraction
Laser
Bioelectricity, sensory systems
The cell membrane. Resting potential
Sensory receptors, action potential
Vision
Hearing
Cytoskeleton
Cytoskeleton
Motor proteins, cell motility
Thermodynamics
Foundations of thermodynamics
Laws of thermodynamics
Thermodynamic potentials
Protein structure and folding
Transport
Diffusion
Osmosis
Fluid flow
Biophysics 2 lectures
Biomedical research methods
Spectrophotometry
Fluorescence spectroscopy
Fluorescence anisotropy. FRET
Infrared and Raman spectroscopy
NMR. ESR
Flow cytometry
Sedimentation, electrophoresis
Light microscopy, Fluorescence microscopy
Modern microscopic methods. FRAP
Mass spectrometry
Diagnostic methods
Diagnostic X-ray imaging, CT
Ultrasound
MRI
Gamma-camera, SPECT, PET
Nuclear physics, radioactivity
Structure of the atomic nucleus.
Radioactivity
Interaction of radioactive radiation with matter
Biological effects of radioactive radiation
Laboratory practicals
ROOM 1
1. Direct current measurements
2. Alternative current measurements
3. Electric conductivity.Refractometry
4. Spectroscopy and spectrophotometry
5. Polarimetry
6. Viscosity of fluids
7. Surface tension
8. Adsorption and swelling
9. Centrifugation
10. Electrophoresis
ROOM 2
1. The Geiger-Müller counter.Radioactive half-life
2. Gamma-absorption and spectrometry
3. The absorption of beta-radiation, dead time
4. Scintigraphy
5. Optics
6. Absorption photometry
7. Blood pressureElectrocardiography
8. Ultrasound
9. Temperature measurement
10. Audiometry
Being late
The students must arrive on practice in time.
Being late from practicals is NOT ALLOWED (neither halfnor one minute).
In case of delay the student do not join to the practice.
One delay counts as one absence.
Maximum 3 absences.
Mobile phone
During the practical using of phone /tablet ispermitted ONLY as calculator.
ARE FORBIDDEN.
Making a phone call
Music
Video and / or audio recording
Playing with mobile, tablet etc.
Visiting of social networks, chat
During the practical:
Leaving the room is NOT ALLOWED for thereasons below:
smokingmaking a phone callshopping of food or drinkeating and/or drinking.
Eating and drinking IS STRICTLY FORBIDDEN in thelab.
Rules for the lab practicals
10 practicals have to be performed each semester
Missed practicals have to be made up (3 extra labs)
Being late is not allowed and counts as an absence
Students have to prepare for the labs at home
Students have to write a lab report that will be checked by the lab
teacher
Conditions for taking the exam:
finishing all the labs with an accepted lab report, practical grade
(from the test on the 13th week)
Midterm test
Expected on the 6th and 13th week average of the two
test gives the exam theory grade
Lab test (only on the 13th week)
- from the material of the lab practical
- above 60% the student gets a practical grade
Exam
1. Lab exam
Lab grade is obtained from the 2nd midterm test during
the 13th week.
If someone fails can have a retake on the 1st week of the
exam period. The practical grade is a precondition of the
theory exam. Only those students will obtain their grade
from theory who have practical grade.
Exam
2. Theory exam
Exam grade is formed from two tests during the semester.
The two tests will be probably written on the 6th and 12th
week. The exam grade is the average of the two tests.
If somebody fails these tests can have a retake during the
exam period.
Optional courses
Biophysics seminars 1
Helps the understanding of 1st Semester Biophysics lectures
Facultative, 1 hr seminar / week, 1 credit
Physical basis of biophysics
Physical background for biophysics
Elective, 2 hrs seminar / week, 2 credits.
Modern biophysical research methods
Background and practical aspects of research methods
Facultative, 1 hr lecture + 2 hrs practical / week, 3 credits
Physicsal basis and application of medical imaging techniques
Facultative, 2 hrs lecture / week, 2 credit
Optional courses (2nd Semester)
Biophysics seminars 2Helps the understanding of 2nd Semester Biophysics lecturesFacultative, 1 hr seminar / week, 1 credit
Physical basis of biophysicsPhysical background for biophysicsElective, 2 hrs seminar / week, 2 credits
Physical basis of diagnostic and therapeutic methods Facultative, 2 hrs seminar / week, 2 credits
BioinformaticsUsing biological databases, analysis of DNA and protein sequencesFacultative, 1 hr lecture + 1 hr practical / week, 2 credits
Molecular basis of muscle functionFacultative, 2 hrs lecture / week, 2 credit
STUDENT RESEARCH TOPICS
DEPARTMENT OF BIOPHYSICS
ACTIN DYNAMICS LAB
Dr. Beáta Bugyi, senior lecturer
Email: [email protected]
A disordered protein in
an ordered structure
FORMIN: a unique protein
in neuronal and muscle
development
Let’s build a
cell:
biomimetic
models VISIT OUR WEBSITE! http://www.biofizika.aok.pte.hu/researchgr
oup/Actin_dynamics
BACTERIAL CYTOSKELETON RESEARCH GROUP
Emőke Bódis, senior lecturer, [email protected]
Szilvia Barkó, senior lecturer, [email protected]
Dávid Szatmári, assistant professor, [email protected]
o Prokaryotic cytoplasm ≠ ‛primordial soup’
o Bacteria also have cytoskeleton
Determines the cell wall - multidrog resistance
Nature 451, 124-126 (2008)
MreB (orange), FtsZ (yellow), ParM (green)MreB monomer from Leptospira interrogansPredicted by Phyre2 program
o recombinant protein expression system
and spectroscopic applications
o biochemical and biophysical studies
o investigation of in vitro and in vivo
functions
VISIT OUR WEBSITE! http://www.biofizika.aok.pte.hu/researchgroup/Bacterial_cytoskeleton
INTERACTIONS OF TROPOMYOSIN ISOFORMS AND GELSOLIN FAMILY PROTEINS IN THE ACTIN CYTOSKELETON
Gábor Csaba Talián, senior lecturer, [email protected]
Actin cytoskeleton – cell shape,
cellular movements, endocytosis,
cytokinesis (division)
Several hundreds of actin binding
proteins – great number of intricate
interactions
Gelsolin: Regulates the dynamics of
filament formation, directly binds to
tropomyosins
Aim: Investigation of influence by different tropomyosins on the molecular functions
of gelsolin
Methods: Molecular cloning, protein expression, fluorescent spectroscopy, fluorescent
microscopy, biochemical measurements
Organisation of some important proteins in the striated muscle
INVESTIGATION OF FLUORESCENTLY MODIFIED ACTIN MUTANTS
BY SPECTROSCOPY METHODS AND MICROSCOPEDR. Talián
Gábor Csaba Talián, senior lecturer, [email protected]
Introduction of a stop codon into the cell by cloning
Mutant t-RNA recognising this stop codon and carrying a specific and fluorescent amino acid
Protein fluorescently labelled at arbitrary sites that is expressed by the cell
Aim: Production of actin mutants labelled at yet inaccessible positions
Investigation of intramolecular structural changes in the actin under various parameters or in
the presence of different protein partners
Study of actin cytoskeleton morphology in living cells
Methods: Molecular cloning, in vitro protein expression, fluorescence spectroscopy, fluorescence
microscopy, cell culture
NANOTUBE RESEARCH GROUP
Edina Szabó-Meleg, senior lecturer
Cos7, LSCM, 63x
Superresolution microscopy
applied for the discovery of
intercellular communication
Aim: reveal molecular processes and
interactions in the formations and
function of membrane nanotubes by
the application of superresolution
microscopy (SIM)
Membrane protrusions, providing physical
connections between cells: transport of
cell organelles, viruses, bacteria, prions,
proteins, lipids, DNA and RNA molecules
Aim: reveal the mechanism of formation
of membrane nanotubes and clarify
transport processes within the tubes
Cos7, 63x, SIM
New direct communication
pathways between cells. Study of
membrane nanotubes by
microscopy
Investigation of functional
dynamics of photoactive proteins
by ultrafast spectroscopical
methods
Investigation of photoactive and
photochromic proteins by
fluorescence and transient
absorption
ULTRAFAST PROTEIN DYNAMICS RESEARCH GROUP
András Lukács, senior lecturer, [email protected]
Dealing with special proteins that
functional when exposed to light (e.g.
photochromic proteins – can be switched
between two different states due to light)
VISIT OUR WEBSITE!http://www.biofizika.aok.pte.hu/researchgroup/Ultrafast_dynamics
Aim: elucidating the early molecular
events of photoactive flavoproteins
focusing on AppA and other BLUF
(blue light sensing using FAD)
domain proteins and DNA
photolyase
The role of myosin 16 – a unique motor
protein in the neuronal development
MYOSIN 16 RESEARCH GROUP
András Kengyel, assistant professor [email protected]
Recombinant protein engineering
Fluorescence microscopy Enzyme kinetics
VISIT OUR WEBSITE!http://www.biofizika.aok.pte.hu/researchgroup/Myosin_1
6
Midterm test18 th OCTOBER18.00 -19.00
ID CARDCalculator
I. Lecture Hall (main building)
P1 P2P3
II. Lecture Hall (main building)
P4P5T0
