Transcript HSLS Molecular Biology and Genetics Information Service

Development of an Information
Service Program in Molecular
Biology and Genetics
Ansuman Chattopadhyay, PhD
Information Specialist in Molecular Biology and Genetics
Barbara A. Epstein, MSLS, AHIP
Associate Director, Health Sciences Library System
Patricia C. Mickelson, MLS
Director , Health Sciences Library System
Nancy H. Tannery, MLS
Assistant Director, Information Services
Health Sciences Library System
University of Pittsburgh
Pittsburgh
Background
• Recognition that a rapidly growing research
component is focused on molecular biology
and genetics
• HSLS hosted NCBI workshops
• HSLS invited Stuart Yarfitz , Ph.D. from
U. of Washington as a consultant to give
presentation on the U. of Washington
Bioinformatics Services Program and meet
with key administrators and faculty
Background
HSLS convened a planning group of interested
individuals from several relevant units to help
define information needs in molecular biology
and genetics
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Center for Human Genetics
Center for Computational Biology
Center for Biomedical Informatics
Office of Research
Dept of Molecular Genetics and Biochemistry
Pittsburgh Supercomputing Center
With input from planning group, HSLS drafted a proposed
Program Plan for a Specialized Information Service in
Molecular Biology and Genetics and a position description
for an Information Specialist
Background
•
Senior Vice Chancellor for Health Sciences agreed to
fund the Information Specialist position and contribute
funding for resources
• School of Medicine alumnus donated $100,000 to
subsidize molecular biology / genetics databases
• Recruitment for Information Specialist initiated in
fall 2001.
Position advertised in Cell, Nature, Science,
The Scientist and Nature Structural Biology and
numerous list-servs.
• Ansuman Chattopadhyay, PhD, hired in spring 2002
Ansuman Chattopadhyay, Ph.D.
[email protected]
•1990-1996
University of Nebraska-Lincoln
PhD. in Biochemistry
Protein synthesis initiation in eukaryotic system
•1997-2001
Vanderbilt University School of Medicine
Research Fellow
Epidermal Growth Factor (EGF) mediated signal transduction
•2001-2002
Cellomics Inc., Pittsburgh
Knowledge Engineer,
Literature retrieval software
•2002- Present
Information Specialist in Molecular Biology and Genetics
HSLS, University of Pittsburgh
Molecular Biology and Genetics
Information Service
• Development of a web-based portal
for molecular biology and genetics
information
• Development of training workshops
on the use of bioinformatics tools
• Consultation service to access biological
information resources
Modern day life science research: a multi-step process
BLAST
Search
PubMed
Search
CellSpace
Knowledge
Miner
Starting
Point
Proteome
BioKnowledge
Library
NCBI-LocusLink
GeneLynx
GeneCards
Protein
Interaction
Databases
Knowledge
Mining
Vector NTI
Nucleic Acid
Sequence
Analysis
Software
Protein
Sequence and
Structure
Analysis
Nucleic Acid /
Protein analysis
Research
Link
Current
Protocols
Online
Commercial
Free to
academic users
Lab Work
HSLS Online-Molecular Biology
web site : A Portal for
Molecular Biology and Genetics
http://www.hsls.pitt.edu/guides/genetics
http://www.hsls.pitt.edu/guides/genetics
BLAST
Search
PubMed
Search
CellSpace
Knowledge
Miner
Starting
Point
Proteome
BioKnowledge
Library
NCBI-LocusLink
GeneLynx
GeneCards
Protein
Interaction
Databases
Knowledge
Mining
Vector NTI
Nucleic Acid
Sequence
Analysis
Software
Protein
Sequence and
Structure
Analysis
Nucleic Acid/
Protein analysis
Research
Link
Current
Protocols
Online
Commercial
Free to
academic users
Lab Work
http://www.hsls.pitt.edu/guides/genetics
http://www.hsls.pitt.edu/guides/genetics
A task specific
hierarchical
list of hyperlinks to
bioinformatics
software and databases
http://www.hsls.pitt.edu/guides/genetics
restriction digestion
Health Sciences Library & Bioinformatics
Traineeship
Part of Pittsburgh Biomedical Informatics Training
Program funded by NLM
Previously traineeship was only a one year
certificate program in Health Sciences Library
and Bioinformatics
Joint program between HSLS and Center for
Biomedical Informatics
Library & Bioinformatics Traineeship
Traineeship now includes option of two year
degree program:
• Designed for trainees with background in
biological sciences (molecular biology
and genetics)
• Courses lead to a master degree in Bioinformatics
• Trainee gains experience in providing specialized
Molecular Biology / Genetics Information Services
in the Health Sciences Library
• First trainee in two year program started in 2003
Future Plan
•
Introduce HSLS Molecular Biology portal via
departmental seminars
• Offer workshops on
Genomic Resources
Structural Biology
Licensed Resources
Vector NTI
CellSpace
“…..only half of biomedical researchers using
genome databases are familiar with the tools
that can be used to actually access the data.”
“….. all scientists on the planet must be
empowered to use these powerful databases
to unravel longstanding scientific mysteries.”
atabases to unravel longstanding scientifi
c… Andreas D. Baxevanis & Francis S. Collins
Nature Genetics, September 2002, Vol 32