Presentation to science librarians about the BioTools site (http://biotools.umassmed.edu/), a resource of tools for bioinformatics for the five schools of the University of Massachusetts System

Lapointe, David S.

English

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University of Massachusetts Medical School eScholarship@UMMS University of Massachusetts and New England Area Librarian e-Science Symposium 2009 e-Science Symposium Apr 6th, 12:00 AM BioTools at UMassMed David S. Lapointe University of Massachusetts Medical School Follow this and additional works at: https://escholarship.umassmed.edu/escience_symposium  Part of the Bioinformatics Commons, and the Library and Information Science Commons This work is licensed under a Creative Commons Attribution 4.0 License. Repository Citation Lapointe, D. S. (2009). BioTools at UMassMed. University of Massachusetts and New England Area Librarian e-Science Symposium. https://doi.org/10.13028/s0bp-9q31. Retrieved from https://escholarship.umassmed.edu/escience_symposium/2009/program/4 Creative Commons License This work is licensed under a Creative Commons Attribution 4.0 License. This material is brought to you by eScholarship@UMMS. It has been accepted for inclusion in University of Massachusetts and New England Area Librarian e-Science Symposium by an authorized administrator of eScholarship@UMMS. For more information, please contact Lisa.Palmer@umassmed.edu. Biotools at UMassMed    David Lapointe, Ph.D. Director Scientific Computing University of Massachusetts Medical School biotools.umassmed.edu Bioinformatics has a large toolset Bioinformatics? • Bioinformatics covers a large territory – Sequence and Genome Analysis – Computational Biology – Databases – Visualization – Programming • Informatics applied to Biology Motivation Biotools started 2001  First as a resource for  the Bioinformatics Course  Later expanded access to UMass system, Worcester Colleges, and global.  Last month, 12000 visits from 73 countries. Gateways to local resources  Lists  Wikis  Tools Links to External resources Next Up Provide links to local resources       Faculty developed applications       Portal to data storage        Develop applications for Web 3.0         Web 3.0? Where is this going? The web is a great vehicle for distributing information, creating resources.  The web, however, is human readable  It is  difficult to harvest information from websites.   Resource creators are moving to semantic web along with web service models to allow machine harvest  of information. http://www.pathguide.org Example  So a researcher might come to me or you and ask I have 200 Entrez gene Ids.  What pathways do these genes belong to? What resource would you direct them toward? There is always Google! Hmm, mostly journal articles. Let see Workflows only Ok This looks better www.myexperiment.org www.biocatalogue.org The end result is that we are approaching   eScience (EU)/cyberinfrastructure(USA)    Genomics (NCBI, Ensembl, UCSC,GMOD)  meets System Biology (KEGG,BIND,GO)   

BioTools at UMassMed

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BioTools at UMassMed

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