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Development of an Information Development of an Information Service Program in Molecular Service Program in Molecular
Biology and GeneticsBiology and GeneticsAnsuman Chattopadhyay, PhD
Information Specialist in Molecular Biology and Genetics
Barbara A. Epstein, MSLS, AHIPAssociate Director, Health Sciences Library System
Patricia C. Mickelson, MLSDirector , Health Sciences Library System
Nancy H. Tannery, MLSAssistant Director, Information Services
Health Sciences Library SystemUniversity of Pittsburgh
Pittsburgh
BackgroundBackground• 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
HSLS convened a planning group of interested individuals from several relevant units to help define information needs in molecular biologyand genetics
• 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
BackgrounBackgroundd
BackgroundBackground• 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
•1990-1996University of Nebraska-LincolnPhD. in BiochemistryProtein synthesis initiation in eukaryotic system
•1997-2001Vanderbilt University School of MedicineResearch FellowEpidermal Growth Factor (EGF) mediated signal transduction
•2001-2002Cellomics Inc., PittsburghKnowledge Engineer, Literature retrieval software
•2002- PresentInformation Specialist in Molecular Biology and GeneticsHSLS, University of Pittsburgh
Ansuman Chattopadhyay, [email protected]
Molecular Biology and Molecular Biology and Genetics Information Genetics Information
ServiceService• 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
StartingPoint
BLAST Search
PubMedSearch
CellSpaceKnowledge
Miner
Proteome BioKnowledge
Library
GeneLynx
GeneCards
Protein Interaction Databases
Vector NTI ResearchLink
Nucleic Acid SequenceAnalysis Software
Knowledge Mining
Nucleic Acid /Protein analysis
Lab Work
Protein Sequence and
StructureAnalysis
CurrentProtocols
Online
Commercial
Free to academic users
NCBI-LocusLink
Modern day life science research: a multi-step process
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
StartingPoint
BLAST Search
PubMedSearch
CellSpaceKnowledge
Miner
Proteome BioKnowledge
Library
GeneLynx
GeneCards
Protein Interaction Databases
Vector NTI
ResearchLink
Nucleic Acid SequenceAnalysis Software
Knowledge Mining
Nucleic Acid/Protein analysisLab Work
Protein Sequence and
StructureAnalysis
CurrentProtocols
Online
Commercial
Free to academic users
NCBI-LocusLink
Workshop #1
Workshop #2
Workshop #3
http://www.hsls.pitt.edu/guides/genetics
http://www.hsls.pitt.edu/guides/genetics
A task specific hierarchicallist of hyperlinks to bioinformaticssoftware 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 TraineeshipLibrary & 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 PlanFuture 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 databasesto unravel longstanding scientific mysteries.” atabases to unravel longstanding scientifi c… Andreas D. Baxevanis & Francis S. Collins Nature Genetics, September 2002, Vol 32
