Orientation
Biomedical Informatics Graduate Program
Presented by: Bill Hersh, Joanne Valerius Shannon McWeeney
Date: September 26, 2014
Overview of Today’s Activities
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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
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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 Graduate
Program
• 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, and
availability
Degree/Certificate
Track
PhD
Clinical Informatics
On-campus
Bioinformatics and
Computational
Biology
On-campus
Health Information
Management
MS
MBI
Grad Cert
On-campus
On-campus
On-campus
On-line
On-line
On-line
On-campus
On-campus
On-campus
On-line
On-line
On-line
On-campus
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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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Building block approach
Masters
- Courses in domains:
- Clinical Informatics
- Bioinformatics
- Health Information Management
- Thesis or Capstone
Graduate Certificate
- Courses in domains:
- Clinical Informatics
- Health Information Management
10x10
- Or introductory course
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PhD
- Courses in domains:
- Clinical Informatics
- Bioinformatics
- Knowledge Base
- Advanced Research
Methods
- Biostatistics
- Cognate
- Doctoral Symposium
- Mentored Teaching
- Dissertation
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
PhD
NLM and other
training grants
Master’s Degree
For physicians only
(for now): ACGMEaccredited clinical
informatics
fellowship, leading to
board certification:
• Didactic
coursework
• Project work
• Clinical practice
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 degrees
and certificates
Graduates
GC
MBI
MS
PhD
Total
CI
321
146
68
10
545
BCB
0
6
9
6
21
HIM
37
2
0
0
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Total
358
154
77
16
605
International students from: Argentina,
Singapore, Egypt, Israel, Thailand,
Zimbabwe, Saudi Arabia, China, etc.
Some job titles and employers
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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
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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
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 have
diverse inputs and outputs
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)
There is no single career
pathway, ladder, etc.
Biomedical
and health
informatics
education
(graduate
level)
Others, e.g., business,
library and info. science
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Jobs in:
• Healthcare systems
• Clinical leadership
• IT leadership
• Biomedical research
• Industry
• Academia
Health Information
Management Program
OHSU
Director: Joanne Valerius, PhD, MPH,
RHIA
valerius@ohsu.edu
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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 Security
 Operational Management and Human
Resource Development:
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Format of Coursework
 All 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 PhD
 The 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 completion
 At 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 Today
 HIM professionals serve in various roles, including:
 Director/Manager/Supervisor
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-Health Data Analyst
Researchers and Data Managers
-Patient Portal Manager
EHR Trainer/Educator
-Data Integrity Specialist
Chief Knowledge Officer
-Clinical Vocabulary Manager
Clinical Documentation Specialist -Revenue Management
Educator in Higher Ed
-Consultant
Compliance Officer
-Privacy/Security Officer
 Executive Suite in healthcare and vendor agencies
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References
 AHIMA Advocacy and Public Policy
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ahima.org/advocacy/default.aspx
Centers for Medicare and Medicaid Services EHR Incentive Programs
cms.gov/EHRIncentivePrograms/
Health IT Buzz Blog
healthit.hhs.gov/blog/onc
Office of the National Coordinator
healthit.hhs.gov/portal/server.pt
Health Information Career Pathfinder
hicareers.com/Toolbox/pathways.aspx
Health Information Management Concepts, Principles, and Practice, 4th
Edition
Bureau of Labor Statistics
bls.gov/oco/cg/cgs035.htm
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Bioinformatics and Computational Biology
Track
Definition of Biomedical Informatics
Broad field: focused on the use of information
and technology in health and biomedicine.
Clinical Informatics
Focus on clinical
medicine & health
care.
Bioinformatics
Focus on issues in
genomics, molecular and
computational biology
Emphasis on @OHSU on
Translational Bioinformatics
Clinical Genomics:
Individualized Therapy in Leukemia
Dr. Brian Druker
Director, OHSU Knight Cancer Institute
Developed Gleevec one of first targeted
cancer therapies
• 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 cancer
Clinical Genomics:
Rationale for Multi-OMICS
RNA-seq: Actionable overexpression
DNA and RNA
Genomic variation in DNA: Nothing actionable
Source: NY Times
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:
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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
BCB Core Sequence (Year 1 & 2)
• Computational Genetics (Year 2)
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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)
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Cutting-edge topics in the field (changes every year)
Some past topics: Systems Biology,
Pharmacogenomics, Noncoding Genome
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
Chirpstory: Cold Spring Harbor Meeting
• Emerging BCB
culture
– social interaction
– open source
– PLoS
– SeqAnswers
– ENCODE project
www.facebook.com/OHSUBioinformatics
www.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-andlogistics/services-for-individuals/parking/dayparking-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
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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.
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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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