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You are here > SLA talk June 10 > Taxonomy bibliography Biopharmaceutical
Taxonomy bibliography
*particularly recommended Cautious optimism * "The Diffusion of Science Driven Drug Discovery: Organizational Change in Pharmaceutical Research" by Rebecca Henderson, MIT Sloan School of Management and NBER; Luigi Orsenigo, Universita' Commerciale Luigi Bocconi; Gary P. Pisano, Harvard Business School, 1999. Available as a PDF at http://www.cid.harvard.edu/cidbiotech/events/henderson.htm What is really going on here? http://www.genomicglossaries.com/presentation/SLAwhatisgoingonhere.asp What are taxonomies? Deborah L. McGuinness, "Ontologies Come of Age". To appear in Dieter Fensel, Jim Hendler, Henry Lieberman, Wolfgang Wahlster, eds. The Semantic Web: Why, What, and How, MIT Press, 2001. http://www.ksl.stanford.edu/people/dlm/papers/ontologies-come-of-age-mit-press-(with-citation).htm Christina Wodtke, Unraveling the mysteries of metadata and taxonomies, April 9, 2002. http://www.boxesandarrows.com/archives/002570.php How taxonomies can help How taxonomies became chic and why it matters, 2001 Taxonomies role in content management, Thomas Pack, EContent, Mar. 2002 http://www.econtentmag.com/r5/2002/r5pack3_02.html How to get started with taxonomies How do you build a thesaurus? Peter Morville, Web Review, Oct. 30, 1998 http://www.ddj.com/184412945 Thesaurus construction, Tim Craven, Univ. of Western Ontario, Canada, 1997- 2002. http://instruct.uwo.ca/gplis/677/thesaur/main01.htm * Building Taxonomies, Susan Conway and Char Sligar, Unlocking Knowledge Assets, Chapter 6, Microsoft Press, 2002. http://www.microsoft.com/mspress/books/sampchap/5516.asp#SampleChapter Practical Taxonomies: Hard-won wisdom for creating a workable knowledge classification system, Sarah L. Roberts-Witt, 1999. http://www.phys.uni.torun.pl/~duch/ref/s-search/taxonomy/featureb1.htm * Ontology 101: A guide to creating your first ontology, Natalye Fridman Noy and Deborah McGuinness, Knowledge Systems Laboratory, Stanford University, Mar. 2001. http://ksl.stanford.edu/people/dlm/papers/ontology-tutorial-noy...l Advanced taxonomists only! Robert Stevens' slides, Univ. of Manchester, UK at Synopsis of the Bio- Ontologies Workshop at the EBI for MGED, Dec. 5, 2001] http://www.cbil.upenn.edu/Ontology/EBI_Bioontologies_Workshop.html Ontology life cycle, provisional methodology for building. No standard yet. Don't reinvent the wheel: Look here first Michael Krauthammer, Brief review of clinical vocabularies, MGED Microarray Gene Expression Data Society, Ontology Working Group, 2002 http://www.cbil.upenn.edu/Ontology/MKreview.html Dennis Wollersheim, Implementation of dynamic taxonomies for clinical guidelines retrieval, La Trobe Univ., Australia, c. 2001 http://homepage.cs.latrobe.edu.au/lewisba/SPIRT/dw2001c.pdf. More general Thesauri and controlled vocabularies, National Library of Canada, 2002 http://www.nlc-bnc.ca/8/4/r4-280-e.html Carol Ellerbeck, Business Information Taxonomist, Baker Library, Harvard Business School, Recommendations from her Jan. 22, 2002 email on the xml-dev listserv, Active State Programmer Network http://lists.xml.org/archives/xml-dev/200201/msg01530.html Controlled vocabularies, Queensland Univ. of Technology, Australia, 2002 http://sky.fit.qut.edu.au/~middletm//cont_voc.html Controlled vocabularies, thesauri and classification systems available in the WWW. DC Subject, Traugott Koch, Lunds Universitets Bibliotek, Sweden, 2001. http://www.lub.lu.se/metadata/subject-help.html Dynamic taxonomies for faster drug discovery
& development? * Knowledge Management Dos and Don'ts, Charlie Matthews, VisualInterConnections, 2002] http://www.visualinterconnections.com/CEM/dos.htm Nicola Guarino "Formal Ontology and Information Systems, 1998 http://www.ladseb.pd.cnr.it/infor/Ontology/Papers/FOIS98.pdf. Jeff Heflin, James Hendler "Dynamic Ontologies on the Web" American Association for Artificial Intelligence, 2000 http://www.cs.umd.edu/projects/plus/SHOE/pubs/aaai2000.pdf Jim Hendler "Introduction to ontologies on the semantic web", 2001 http://www.cs.umd.edu/users/hendler/ontologies.html Gio Wiederhold and Jan Jannink "Composing Diverse Ontologies:, 1999 http://www-db.stanford.edu/SKC/publications/ifip99.html Maged N. Kamel Boulos, Towards a Semantic Medical Web: HealthCyberMap’s Dublin Core Ontology in Protégé 2000 http://protege.stanford.edu/ontologies/dublincore/hcm_dc_in_protege_newcastle.pdf Gene Ontology TM consortium http://www.geneontology.org/
The goal of the Gene OntologyTM Consortium is to produce a dynamic
controlled vocabulary that can be applied to all organisms even as knowledge of
gene and protein roles in cells is accumulating and changing. Taxonomies put content in context, Russell Letson, Transform Magazine, Dec. 2001 http://www.transformmag.com/db_area/archs/2001/12/tfm0112f1.shtml?enterprisesolutions Peter Morville "Little Blue Folders", Argus Center, 2000 Lynda Moulton, LWM Technologies Readings of interest
http://www.lwmtechnology.com/
" William Woods, Sun Microsystems Community building Etienne Wenger et. al. Communities of practice http://www.ewenger.com/tech/index.htm Gladwell, Malcolm, The Tipping Point: How little things can make a big difference, 2000, links to Amazon reviews. Read about "connectors" and mavens Lincoln Stein "Creating a bioinformatics nation" Nature 417:119- 120, 9 May 2002 Change Bibliography
Acknowledgements Cambridge Healthtech Institute GlaxoSmithKline Warren Casey LWM Technology
Lynda Moulton Library & Information
Rosanne Labree New England Storytelling
Marjorie Turner Oklahoma
University Ricardo Saban Treadwell
Library
Julie Whelan Tufts Center for the
Peg Hewitt VisualInterconnections Charlie Matthews Where's
my stuff: change, opportunities
& threats, best
practices, lessons
learned, ongoing
challenges, integrating,
remember mchitty@healthtech.com http://www.genomicglossaries.com Cambridge Healthtech Institute http://www.healthtech.com |
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