Biology in Silico : Online Tools for “ Omics ”
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Biology in Silico : Online Tools for “Omics”
WCRC RETREATSEPTEMBER 6TH, 2014
ANSUMAN CHATTOPADHYAY, PHDHEAD, MOLECULAR BIOLOGY INFORMATION SERVICEHEALTH SCIENCES LIBRARY SYSTEMUNIVERSITY OF PITTSBURGH
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Topics
HSLS Molecular Biology Information
Service
Library Licensed Bioinformatics Tools
Search Engine, InfoBoosters
& ReadingAssist
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http://hsls.libguides.com/wcrc
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Information Overload
285K • Breast Cancer
110K • Schizophrenia
11K • BRCA1
73 K • p53
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1996 1997 1998 1999 2000 2001 2002 2003 2004 2005 2006 2007 2008 2009 2010 2011 2012 20130
1000
2000
3000
4000
5000
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7000
8000
9000
Growth of Molecular Databases and Tools
Year
# o
f papers
Information Overload
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Molecular Biology Information Service
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•1990-1996University of Nebraska-LincolnPhD. in BiochemistryProtein synthesis initiation in eukaryotic system
•1997-2001Vanderbilt University School of Medicine, NashvilleResearch FellowEpidermal Growth Factor (EGF) mediated signal transduction
•2001-2002Cellomics Inc., PittsburghKnowledge Engineer
•2002- 2006Information Specialist in Molecular Biology and GeneticsHSLS, University of Pittsburgh
Ansuman Chattopadhyay, [email protected]
•2006- PresentHead, Molecular Biology Information ServiceHSLS, University of Pittsburgh
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Bioinformatics Service @ Health Sciences Libraries
1994 : University of Washington 2002: University of Pittsburgh
2006 …
University of Florida, Gainesville
Washington University, St. Louis
Northwestern University, Chicago
University of Southern California, LA
University of California, San Francisco
Harvard UniversityUniversity of Rochester……………………
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Workshops
Web Dev
Software Licensing
Bioinformatics
Consultations
Molecular Biology Information Service
http://www.hsls.pitt.edu/molbio
4
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In silico Support
Literature
Search
Sequence
Analysis
Omics Data
Analysis
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Molecular Biology Information ServiceHSLS Licensed Bioinformatics
Software
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Software Access
http://www.hsls.pitt.edu/molbio
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ePath3D
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ePath3D
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ePath3D
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Bioinformatics Workshops
CLCBio – RNA Seq .. October 7th, 2014CLCBio – Exome, Whole Genome Seq, October 8th,2014
UCSC Genome Browser Road Show .. December 4th ,5th , 2014
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Life Sciences Search Engine
InfoBoosters
ReadingAssist
Web Development
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Search Engine for Life Scientists
http://www.hsls.pitt.edu/molbio
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Database Issue Web Server Issue Software and Database articles
Search Engine for Life Scientists
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Databases/Tools : CRISPR
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how is it calculate
d ?
workflow: copy, paste, and Google
what is its
function ?
what is its
structure?
Challenges for Biomedical Scientists
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InfoBoosters
www.hsls.pitt.edu/infoboosters
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InfoBoosters
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InfoBoosters
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Infoboosters
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Infoboosters
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InfoBoosters
How is it calculated ?
What is its
function ?
What is its
structure?
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Data Integration
InfoBoosters
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Create Your Own InfoBoosterWWW.hsls.pitt.edu/infoboosters
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InfoBooster Generator
Clinical Trials.gov
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InfoBooster GeneratorGo to the Clinical Trials.gov Website and do a search with a one-word search term, such as asthma
1
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InfoBooster GeneratorCOPY the URL from the search result page
2
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InfoBooster Generator
3
4
5
WWW.hsls.pitt.edu/molbio/infoboosters
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InfoBooster Generator
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InfoBooster Generator
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ReadingAssist
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ReadingAssist
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ReadingAssist
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Contact US
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Thank You