OrientationBiomedical Informatics Graduate Program

Presented by: Bill Hersh, Joanne Valerius Shannon McWeeney

Date: September 26, 2014

Overview of Today’s Activities

• Welcome and Introductions• Overview of Program and Tracks• Student Pictures• Staff Introductions• Professional Conduct• Lunch• Campus Tours

Department of Medical Informatics &Clinical Epidemiology (DMICE)

• One of 26 departments in OHSU School of Medicine• Mission is to provide leadership, discovery, and dissemination of

knowledge in the areas of biomedical informatics and clinical epidemiology– Fulfilled through programs of research, education, and service

• Department leadership– William Hersh, MD - Chair– Cynthia Morris, PhD - Vice Chair for Education and Training– Joan Ash, PhD - Vice Chair for Faculty Development– Shannon McWeeney, PhD, Head, Division of Bioinformatics &

Computational Biology– David Dorr, MD, MS - Vice Chair for Clinical Informatics– Heidi Nelson, MD, MPH - Vice Chair for Clinical Epidemiology

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DMICE is a national leader

• No official rankings, but OHSU informatics program is– 1 of 14 programs to have a National Library of Medicine NIH Training

Grant for PhD and postdoctoral students– 1 of 9 programs funded under the Office of the National Coordinator

Health IT Workforce Development Program– 1 of 8 programs funded by the NIH Fogarty Center Informatics Training

for Global Health Program in collaboration with Hospital Italiano de Buenos Aires

– Consistent recipient of research funding, appointment to national leadership positions, publication in high-profile journals, etc.

– Highly accomplished alumni being productive in many different settings• Clinical epidemiology program also highly successful, especially in

areas of evidence-based medicine and comparative effectiveness research

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And innovator

• Early adopter of educational technologies and distance learning

• Advancing with the cutting edge of the field

• Informatics Discovery Lab – real-world solutions to real-world problems– http://www.ohsu.edu/idl

OHSU Biomedical Informatics GraduateProgram

• http://www.ohsu.edu/informatics/ • Overall goal of program is to train future professionals,

researchers, and leaders in area of biomedical and health informatics• Tracks focus on different areas of larger field• All programs at graduate level, i.e., require a baccalaureate

degree• Diverse students who typically fall into one of two categories

– “First-career” students more likely to be full-time, on-campus, and from variety of backgrounds

– “Career-changing” students likely to be part-time, distance, mostly (though not exclusively) from healthcare professions

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Program faculty and leadership

• Overall program director – William Hersh, MD• Track leaders

– William Hersh, MD – Clinical Informatics– Shannon McWeeney, PhD – Bioinformatics &

Computational Biology– Joanne Valerius, PhD, RHIA – Health Information

Management• Over 30 other faculty who teach, advise,

mentor projects, etc.

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Program tracks

• Clinical Informatics– Original track, focused on informatics in health,

healthcare, public health, and clinical research settings• Bioinformatics and Computational Biology (BCB)

– Focused on informatics in genomics. molecular biology, and their translational research aspects

• Health Information Management (HIM)– Intersecting with clinical informatics, focused on HIM

profession and leading to Registered Health Information Administrator (RHIA) certification

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Degrees and certificates

• Doctor of Philosophy (PhD)– For those who wish to pursue research, academia, or

leadership careers• Master of Science (MS)

– Research master’s, including for those with doctoral degrees in other fields who wish to pursue research careers

• Master of Biomedical Informatics (MBI)– Professional master’s degree for practitioners and leaders

• Graduate Certificate– Subset of master’s degree as an introduction or career

specialization

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Tracks, degrees and certificates, andavailability

Degree/CertificateTrack

PhD MS MBI Grad Cert

Clinical Informatics On-campusOn-campus

On-line

On-campus

On-line

On-campus

On-line

Bioinformatics andComputationalBiology

On-campus On-campus

Health Information Management

On-campus

On-line

On-campus

On-line

On-campus

On-line

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Curriculum

• Curriculum in each track for degree programs (master’s and PhD) organized into domains, each of which may have courses that are– Required– Individual competency (“k of n”)– Elective

• Core curriculum of degree programs is knowledge base plus additional courses– MS = knowledge base + thesis– MBI = knowledge base + capstone (can be internship)– PhD = knowledge base + additional advanced work,

including dissertation

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PhD- Courses in domains: - Clinical Informatics - Bioinformatics- Knowledge Base- Advanced Research Methods- Biostatistics- Cognate- Doctoral Symposium- Mentored Teaching- Dissertation

Building block approach

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Graduate Certificate - Courses in domains:

- Clinical Informatics- Health Information Management

Masters- Courses in domains: - Clinical Informatics - Bioinformatics - Health Information Management - Thesis or Capstone

10x10- Or introductory course

Other programs

• Fellowships– Predoctoral and postdoctoral funding from National

Library of Medicine, National Institutes of Health, Kaiser Permanente, and others

– Clinical informatics fellowship for physicians starting in 2015

• 10x10 (“ten by ten”)– Continuing education course in clinical informatics– Adaptation of on-line introductory course (BMI 510),

with option to pursue further study at OHSU– Over 1800 have completed course since 2005, with

about 20-25% going on to additional graduate study

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Overview of all OHSU informatics education

Graduate Education Clinical Fellowship

Single courses (e.g., 10x10)

Graduate Certificate

Master’s Degree

PhD

For physicians only (for now): ACGME-accredited clinical informatics fellowship, leading to board certification:• Didactic

coursework• Project work• Clinical practice

NLM

and other

training grants

OHSU informatics program provides value

• For tuition and fees comparable to other programs, get– Cutting-edge curriculum based on solid

foundation– Faculty who are international leaders in

research and practice– Internship/practicum experience– Career development and advising– Connections to industry and others

Alumni – 558 people have earned 605 degreesand certificates

International students from: Argentina, Singapore, Egypt, Israel, Thailand,Zimbabwe, Saudi Arabia, China, etc.

Graduates CI BCB HIM TotalGC 321 0 37 358

MBI 146 6 2 154MS 68 9 0 77PhD 10 6 0 16Total 545 21 39 605

Some job titles and employers

• Product manager• Clinical informatics analyst• Informatics researcher• Librarian• Consultant• Project manager• Terminology engineer• Software engineer• Chief medical informatics officer• Information systems manager• Bioinformatician• Data manager• Database administrator/architect• Faculty

• OHSU• Providence Health System• Kaiser-Permanente• OCHIN• Impact Advisors• Health Share of Oregon CCO• Epic• Cerner• NextGen• Sutter Health• National Library of Medicine• Harvard Medical School• University of Virginia

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Clinical Informatics Track

• Primary goal of clinical informatics track is to educate the future developers and managers of health care information systems

• Individuals with a variety of backgrounds are provided a strong technical grounding in clinical informatics, health and medicine, computer science, and research methods so that they may assume positions that require a thorough understanding of both information technology and the health care environment

Domains of clinical informatics

• Basic principles of biomedical informatics to problems in different domains of health and biomedicine

• Operational knowledge of the human body in health and disease as well as the organization of the health care system

• Principles of organizational behavior and management skills to biomedical informatics problems

• Basic statistics and quantitative or qualitative research methods to evaluative research projects

• Basic computer science principles to problems in health and biomedicine

• Students will be adept in the tools of advanced scholarship , including the ability to address ethical issues in the field, communicate effectively in oral and written form, and complete a thesis (MS degree), capstone (MBI degree), or dissertation (PhD degree)

Emerging aspects of clinical informatics

• Focus shifting from implementing to optimizing clinical informatics systems– Latest buzzword: analytics

• In reality, program already offers course content in statistics, healthcare quality, clinical data standards, etc.

• New courses and grant projects

• For physicians, new subspecialty of clinical informatics– Subspecialty of any primary specialty– Additional certification options likely forthcoming for

non-physicians

Clinical informatics career pathways havediverse inputs and outputs

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Health care professions, e.g., medicine, nursing, etc.

Natural and life sciences, e.g., biology, genetics, etc.

Computer science (CS), IT, and undergrad informatics

Health information management (HIM)

Others, e.g., business, library and info. science

Jobs in:• Healthcare systems

• Clinical leadership• IT leadership

• Biomedical research• Industry• Academia

Biomedical and health informatics education(graduate

level)

There is no single careerpathway, ladder, etc.

Health Information Management Program

OHSU

Director: Joanne Valerius, PhD, MPH, RHIA

valerius@ohsu.edu 22

One Professional’s Viewpoint

“Contributing to Health Care Without the Blood

and Guts”

Lisa Kampa, M.A, RHIA

Focus of Program Content

Implementation of EHR.Data Quality and Information Governance : Available, Accurate, Protected

Privacy and SecurityOperational Management and Human Resource Development:

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Format of CourseworkAll coursework is delivered online except for

the practical work experience or practicum

The practicum is a minimum of 40 hour in person experience in a healthcare setting to gain practical knowledge in field

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From Certificate to PhDThe HIM curriculum has met accreditation

standards of the Commission for Health Informatics and Health Information education.

Within our programs a student can take the curriculum through the following options:Certificate Masters PhD cognate We need PhD’s in our field– and

there are several professorships available

Benefit of HIM track completionAt the completion of the program you can sit

for the national certification exam. When you pass the exam, you will have the

credential RHIA, Registered Health Information Administrator which is known throughout the U.S. healthcare system.

Continued growth in field due to HIT.

HIM Professional Roles TodayHIM professionals serve in various roles,

including:

Director/Manager/Supervisor -Health Data AnalystResearchers and Data Managers -Patient Portal

ManagerEHR Trainer/Educator -Data Integrity

SpecialistChief Knowledge Officer -Clinical Vocabulary

ManagerClinical Documentation Specialist -Revenue

ManagementEducator in Higher Ed -ConsultantCompliance Officer -Privacy/Security OfficerExecutive Suite in healthcare and vendor

agencies

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References

AHIMA Advocacy and Public Policyahima.org/advocacy/default.aspx

Centers for Medicare and Medicaid Services EHR Incentive Programscms.gov/EHRIncentivePrograms/

Health IT Buzz Blog healthit.hhs.gov/blog/onc

Office of the National Coordinatorhealthit.hhs.gov/portal/server.pt

Health Information Career Pathfinderhicareers.com/Toolbox/pathways.aspx

Health Information Management Concepts, Principles, and Practice, 4th Edition

Bureau of Labor Statisticsbls.gov/oco/cg/cgs035.htm

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Bioinformatics and Computational Biology

Track

Definition of Biomedical Informatics

Clinical Informatics Focus on clinical medicine & health

care.

Bioinformatics Focus on issues in

genomics, molecular and computational biology Emphasis on @OHSU on

Translational Bioinformatics

Broad field: focused on the use of information and technology in health and biomedicine.

Clinical Genomics: Individualized Therapy in Leukemia

• AML: Acute myeloid leukemia• Need for novel therapies: current

treatments very toxic and relapse is frequent outcome

• Utilizing Next Generation Sequencing, siRNA and small molecule screens to identify drug targets

• A template for personalized medicine in cancerDr. Brian Druker

Director, OHSU Knight Cancer InstituteDeveloped Gleevec one of first targeted

cancer therapies

Clinical Genomics: Rationale for Multi-OMICS

Source: NY Times

DNA and RNA

RNA-seq: Actionable overexpression

Genomic variation in DNA: Nothing actionable

BCB Focus: Translational Bioinformatics

• Transform exponentially growing genetic, genomic, and biological data into diagnostics and therapeutics

• Develop computational approaches for – Data representation, annotation, and management– Analysis and Integration– Modeling, interpretation, and prediction

• Active areas of study in the BCB track: – data analysis and integration for functional genomics– systems modeling for in silico hypothesis generation/prediction – text mining and information retrieval– imaging and computational neuroscience.

Big Data in Computational Biology

Source:Roland Krause

Personalized Medicine

Source: Clinical Pharmacology & Therapeutics

Curriculum – Objectives

• Train students to become sophisticated, interdisciplinary researchers and/or practitioners applying state-of-the-art computational methods to advance biological discovery

• Enable them to apply their skills to a variety of jobs in academic, hospital, and industry settings.

BCB Core Sequence (Year 1)

• Bioinformatics and Computational Biology I: Algorithms– Algorithm development and application to biological

problems– Class projects with data “hot off the presses”

• Bioinformatics and Computational Biology II: Statistical Methods– Problem driven examination of quantitative issues in

computational biology– Hands-on to allow integration and synthesis of concepts

• Computational Genetics (Year 2)- Bioinformatics and statistical concepts relating to genetic

and genomic research questions- Examine data types used in high-throughput experiments- Discuss the lab experiments in the context of how the

procedures impact the data generated- Experience with current databases used to store data

types

• Current topics in Computational Biology (Year 1)- Cutting-edge topics in the field (changes every year)- Some past topics: Systems Biology, Pharmacogenomics,

Noncoding Genome

BCB Core Sequence (Year 1 & 2)

Research Experience for BCB (Year 1)

• BMI 552 Research in BCB – 10 week project co-mentored by basic

scientist or clinician and DMICE faculty– Provides “hands-on”, on-site experience

during your training • Internship opportunities: OCTRI, Knight

Cancer Institute, PARC (internal) and Institute for Systems Biology, Pacific Biosciences etc (external)

Analysis vs. Synthesis

• Graduate student mindset• Independent thinking: synthesis

www.phdcomics.com

Interaction with Peers, Advisor and Faculty

• Chalk talks

Career Advice

• Erase mental “barriers”

• View your coursework as valuable – skills you can use and master

• Don’t be afraid to ask questions

• Feed your mind – this is a life long process

• Don’t be afraid of change

• Seek out research and volunteer opportunities – it will help you clarify what you are drawn to for possible career areas

• Best path is one that you are good out, that you are passionate about and that is sustainable

Slide: S McWeeney

Blog, tweet, share, like and other good stuff

• Emerging BCB culture– social interaction– open source– PLoS– SeqAnswers– ENCODE project

Chirpstory: Cold Spring Harbor Meeting

www.facebook.com/OHSUBioinformaticswww.twitter.com/OHSUBCB

Logistics

Student progress

• Faculty are very busy BUT students are a top priority• They will state best way to contact them at beginning

of course or advising, which is usually email• Program staff provide additional help and tools (e.g.,

forecasting sheets)• Faulty should respond to simple matters via email

within two business days• More detailed responses may require meeting and/or

involvement of program staff

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Key Program Personnel

• Diane Doctor, Student Support and Internship Coordinator– Email: doctord@ohsu.edu – Office: BICC 504, Office phone: 503-494-4794

• Sarah Melton, Sakai Support– Email: sakai@ohsu.edu Office SON 476– Office: 503-494-7074 Toll Free: 877-972-5249– Office: BICC 404, Office phone: 503-494-2494

• Virginia Lankes, Career Development Coordinator– Email: lankes@ohsu.edu – Office: BICC 404, Office phone: 503-494-2331

Key Program Personnel

• Lynne Schwabe, Administrative Assistant– Email: schwabel@ohsu.edu – Office: BICC 504, Office phone: 503-418-1566

• Lauren Ludwig, Recruiting/Admissions– Email: ludwigl@ohsu.edu – Office: BICC 404, Office phone: 503-494-2252

• Andrea Ilg, Educational Program Administrator– Email: ilgan@ohsu.edu n@ohsu.edu– Office: BICC 504, Office phone: 503-494-2547

Weekly Informatics Conference

• Place to learn about new developments in field and project/employment opportunities.

• Forum for students to present dissertation/thesis proposals, /dissertation/thesis defenses and research in progress.

• Thursdays in BICC 124 (Theater) at 11:30 am (may change due to availability of speakers).

• Attendance is taken – you are strongly encouraged to attend.

• Pizza will be served, remember to RSVP to Lynne.• Presentations are recorded and posted to our You Tube

channel https://www.youtube.com/channel/UCCekPERb6i3xXEDQxwlCeIA

Registration/Course Planning

• Complete registration online. Instructions available on the “Student Resources” page

• Course schedules are provided on the flash drive as well as on the online registration web page.

• Forecasting worksheets are included on the flash drive and can be used as guidelines for planning your schedule.

• 9.0+ credits = full-time student status.• 5.0 credits = part-time student status.

Online Course Evaluations

• The Sakai Course Evaluation Tool has been created to allow increased access to the course evaluations that are a required part of the School of Medicine curriculum. The tool is built into Sakai online courses.– Course evaluations are completed on a term-by-term

basis and are a required part of the curriculum.– The feedback is instrumental in faculty planning.

Student ID Badge

• Work with Diane Doctor to ensure proper paperwork is complete to procure ID Badge

Parking

• Day pass parking is $13 and needs to be purchased online at:

https://o2.ohsu.edu/facilities-and-logistics/services-for-individuals/parking/day-parking-permits.cfm

• Pay station available at the Dotter Lot. Rate of $13 per day.

Transportation

• Tri-Met Bus Service– OHSU offers highly subsidized for annualTri-Met bus passes

available in the Parking Office. – Students need to provide proof of full-time status to receive the

bus pass at the discounted rate.

• Tram and Streetcar– Your OHSU ID badge is good on the Tram and Streetcar.

Textbooks

• Most students prefer to purchase textbooks online at: Amazon, Barnes and Noble, Powells, etc.– Make sure you have the correct ISBN number when

ordering your book online.

Notices

• Notices are sent via email.

• ALL notifications will be sent to your OHSU email address!

Student Jobs

• A number of you are interested in part-time jobs.• We have the following available:

– Teaching assistants – in classes you have previously completed.

– Other projects in the department.– Pay starts at $15 per hour for 5-10 hours per week of

work.

• If interested, please email a resume to Diane at doctord@ohsu.edu.

Remainder of Today

• Pictures/Short Break• Staff Introduction• Professional Conduct• Lunch• Campus Tours

Questions?

Professional Conduct

These guidelines have been developed to enhance the students' training, maximizing the benefits to their profession and society, and to minimize actions that do not benefit the greater good and only selfishly serve the individual.

• Academic achievement• Pursuit of knowledge• Advancement of the University mission• Respect• Responsible conduct in science• Favorable presentation of the University

• Publishing• Building teaching and communication skills• Involvement in professional societies• Community outreach for the sciences

Unacceptable conduct by graduate students

• Providing or receiving unauthorized assistance in course work– Ask the instructor for each course what is

authorized vs unauthorized assistance• Engaging in plagiarism – representing the

work of another as one's own.– "work" can mean either the words or ideas– TurnItIn– "How to Recognize Plagiarism"

What happens if you are suspected of a violation

• Most complaints are handled by the Professional Conduct Committee in DMICE

• If unacceptable conduct has occurred, sanctions may be recommended, including– A change in grade for the course. (Note: the

instructor may, in addition, change a grade on any assignment involved)

– Letter of reprimand– Probation– Recommendation to the Dean for suspension or

dismissal

Questions?Thank you!

end of orientation

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