CBMI Syllabus 2010

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Oct 1, 2013 (3 years and 10 months ago)

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1

Introduction to Biomedical Informatics and its Application to Clinical and
Translational Research


INSTRUCTOR:



Rakesh Nagarajan
rakesh@wustl.edu







LAB INSTRUCTORS:

Bijoy George

bgeorge@path.wustl.edu



Leslie McIntosh

lmcintosh@path.wustl.edu

David Mulvihill


dmulvihill@path.wustl.edu

Sn
ehil Gupta

sgupta@path.wustl.edu


Sharepoint Site:
https://portal.wusm.wustl.edu/cbmi/bmi2010




COURSE DESCRIPTION


Biomedical Informatics (BMI) is a multidisciplinary field that
encompasses individual areas of

bioinformatics, computational biology, translational informatics, imaging informatics, medical
informatics, and hospital informatics. It involves all aspects of
management, analysis, organization and
sharing of information in health care

and biomedical science
.
This
course aims to
provide an overview of
biomedical informatics and its application in facilitating clinical and translational research and in
accelerati
ng the application of research findings to clinical practice.

The course will consist of
introductory lectures outlining the principles of biomedical informatics, current use of informatics in
clinical and translational research and quality improvement ini
tiatives, and practical hands
-
on training in
the use of
local
informatics tools to manage and execute biomedical research studies.



COURSE OBJECTIVES




Increase awareness of the discipline of biomedical informatics and its application in conducting
clinical and translational research across Washington University.




Educate clinicians, researchers, and students on the latest informatics tools and technology

available to facilitate clinical and translational research.

The course
lab work
will specifically
focus on the use and application of the following three tools.


1.

CIDER
: Clinical Investigation Data Exploration Repository (CIDER) is created to maintain
the comprehensive electronic medical record from both inpatient and outpatient encounters for
patien
ts who obtain medical care at Washington University

and BJC practice sites.



2.

ClinPortal:
ClinPortal is a
clinical studies data management application

devel
oped to allow
PIs and study coordinators to
develop and use electronic case report forms
.


3.

Tissue

Suite
:
Tissue

Suite

is a
comprehensive

biospecimen

i
nformatics system which permits
users to track the collection, storage, quality assurance, and distributio
n of specimens as well
as the derivation and aliquotting of new specimens from existing ones (e.g. for DNA analysis).


For more information
about

each of these tools please visit
http://cbmi.wustl.edu/html/projects.html


2






Develop a sizeable body of profes
sionals that understand and can apply the tools of biomedical
informatics to their respective investigative foci in order to accelerate research and the bench to
bedside transition.



POLICIES


Students taking the course for credit are required to attend
both the lecture and laboratory components, to
take laboratory quizzes, complete short assignments and participate in a group project.


Short assignments are due the following week at the start of the laboratory session.



TEXTBOOK
S


None. Reading
materials for each lecture will be available at a later date



SOFTWARE

Access to the applications during the lab sessions will be via the computers in the 601B Becker library
computer lab.


Project Development on laptops or other computers will require:



WUCON access or a VPN account to access the applications.

A VPN account should be requested through your helpdesk for access the applications from offsite.


Adobe Flash Player 8.0

Available at
http://www.adobe.com/products/flashplayer/



COURSE GRADING


25
%
laboratory quizzes

25
%
laboratory short assignments

50% project presentation


We encourage you to work together on
laboratory short assignments which will be assigned at the end of
some
laboratory sessions and will be due the following week. Short laboratory quizzes will be given at
the end of learning sessions, and a group project must be developed, executed, and presented over the
course of the semester
.


Letter grades: 90
-
100 = A, 80
-
89= B, 70
-
79 = C, 60
-
69 = D, <60 = F



COURSE TIMES and LOCATION

Wednesdays
:

4:00
-

5:00pm Farrell Learning and Training Center
(please see class schedule)


5:15
-
7:00pm

Becker Library (601B)



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4

Introduction to Biomedical Informatic
s and its Application to Clinical and Translational Research

Lecture Schedule

Fall 2009



Topic (4:00
-
5:00)


Location

Sept 1


4:00

Overview of Biomedical Informatics

Rakesh Nagarajan

FLT room

211


5:15

Lab Overview

Rakesh Nagarajan

601B Becker Library

Sept 8


4:00

Electronic Health Records (EHR)
-
part I:
Secondary use of the electronic health
record for research purposes

Rakesh Nagarajan

FLT room

211


5:15

CIDER

George Bijoy

601B Becker Library

Sept 15


4:00

EHR part II: Quality Assurance/Quality
Improvement (QA/QI) applications and
Medical Decision Support

Tom Bailey

FLT room

202

Note location change


5:15

CIDER

George Bijoy

601B Becker Library

Sept 22


4:00

Study Design
-
part I (Best practices and
caveats of using the EHR for
research/QA/QI
purposes)

Margie Olsen

FLT room

211


5:15

CIDER

George Bijoy

601B Becker Library

Next Week's Class is on Thursday.

Sept 30


4:00

Study Design

Ramesh Raghavan

FLT room

202


5:15

CSD

Leslie McIntosh


Oct 6


4:00

Clinical studies overview and
management
-

Part I

Rakesh Nagarajan

FLT room

211


5:15

C
linPortal


Snehil Gupta

601B Becker Library

Oct 13


4:00

Clinical studies overview and
management
-

Part II

Rakesh Nagarajan

FLT room

211


5:15

caTissue

Dave Mulvihill

601B Becker Library

Oct
20

4:00

Study design best practices

Philip Miller

FLT room

211


5:15

ClinPortal/caTissue
Integration

Snehil Gupta

601B Becker Library

Oct 27

4:00

Bioinformatics

Rakesh Nagarajan

FLT room

211


5:15

ClinPortal/caTissue Query


601B Becker Library

Nov 3


4:00

Translational & Pathology Informatics


Mark Watson

FLT room

211


5:15

Project Development


601B Becker Library

Nov 10

4:00

Imaging Informatics

Fred Prior

FLT room

202

Note location change


5:15

Project Development


601B Becker Library

Nov 17


4:00

Public health/epidemiology

Graham Colditz


FLT room

211


5:15

Project Development


601B Becker Library

Nov 24

4:00

Thanksgiving



Dec 1

4:00

Public health/epidemiology

Tim Mcbride

FLT room

211


5:15

Project Development


601B Becker Library

Dec 8

4:00

Public health/epidemiology


Jay McDonald

FLT room

211


5:15

Project Presen
t
ations


FLT room

211

Dec 15

4:00

Project Presentation
s


FLT room

211