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Biopharmaceutical Taxonomy bibliography


Mary Chitty mchitty@healthtech.com
Last revised June 9, 2002

*particularly recommended

Cautious optimism
"The Pharmaceutical Industry and the Revolution in Molecular Biology: Exploring the Interactions between Scientific, Institutional and Organizational Change, Iain M. Cockburn, Rebecca Henderson, Scott Stern, 1999. Available as a PDF at  http://www.cid.harvard.edu/cidbiotech/events/henderson.htm

* "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. http://www.nber.org/papers/w7359

What is really going on here?

What are taxonomies?
Liz Edols, Taxonomies: beyond thesauri and classification, Online Currents, No. 97, Sept. 2001. FreePrint

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://boxesandarrows.com/unraveling-the-mysteries-of-metadata-and-taxonomies/

How taxonomies can help
* Katharine C. Adams, How Taxonomies Ease Knowledge Retrieval and Facilitate Associative Learning, Mohomine, April 2001

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
What is a thesaurus?, Jessica Milstead, 2000  https://www.asindexing.org/about-indexing/thesa

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://publish.uwo.ca/~craven/677/thesaur/main01.htm

* Building Taxonomies, Susan Conway and Char Sligar, Unlocking Knowledge Assets, Chapter 6, Microsoft Press, 2002. no longer on web

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://www.ksl.stanford.edu/people/dlm/papers/ontology-tutorial-noy-mcguinness-abstract.html

Don't reinvent the wheel: Look here first
 Life sciences
 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 
XML Cover Pages: Resource Description and Classification, Robin Cover, http://xml.coverpages.org/classification.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  

Dynamic taxonomies for faster drug discovery & development?
Alfred R. Steinhardt, F. Hoffmann-LaRoche, Ltd. "New Information Management Technologies to improve the drug development process, 2001. http://www.infonortics.com/chemical/ch01/presentations-01/steinhardt.pdf

* Knowledge Management Dos and Don'ts, Charlie Matthews, VisualInterConnections, 2002

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

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.

Humans vs. computers - classification
Jean Graef, Montague Institute articles http://www.montague.com/Info/Articles.html

Taxonomies put content in context, Russell Letson, Transform Magazine, Dec. 2001 Taxonomies Put Content in Context

Peter Morville "Little Blue Folders", Argus Center, 2000
http://argus-acia.com/strange_connections/strange003.html

Lynda Moulton, LWM Technologies Readings of interest http://www.lwmtechnology.com/  

Finding information on the web: A knowledge representation approach http://www.ai.mit.edu/projects/iiip/conferences/www95/woods.html

Community building
Amy Jo Kim, Community Building on the Web: Secret Strategies for Successful Online Communities, 2000

Etienne Wenger et. al. Communities of practice Communities of practice and social learning systems - Wenger-Trayner

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 
Dubinskas, Frank. "Janus Organizations: Scientists and Managers in Genetic Engineering Firms" Pages170-232 in Frank Dubinskas (ed.),
Making Time Ethnographies of High Technology Organizations, Philadelphia: Temple University Press, https://www.amazon.com/Making-Time-Ethnographies-High-Technology-Organizations/dp/0877225354
Also in Technology Review.  May/ June 1985: 24-30, 74 Why scientists and managers have trouble getting along. Any good updates?

 

   Acknowledgements

Cambridge Healthtech Institute
Mary Addonizio                           Liz Doubleday
Malorye Branca                           Peet Glowacki
Debbie Brooks                             Shauna Kelly
Beth Castrodale                           Phillips Kuhl
Phil Conti                                     Edel O'Regan
Mike Croft                                    Angie Parsons
David Cunningham                      Andrea Surov
                                                    Chris White

GlaxoSmithKline                        Warren Casey

LWM Technology                        Lynda Moulton
Services

Library & Information                 Rosanne Labree
Services

New England Storytelling        Marjorie Turner
                                                Dr. Florence Ames

Oklahoma University                 Ricardo Saban
Health Sciences Center

Treadwell Library                      Julie Whelan
Massachusetts General Hospital

Tufts Center for the                  Peg Hewitt
Study of Drug Development

VisualInterconnections           Charlie Matthews

Where's my stuff: change, opportunities & threats, best practices, lessons learned, ongoing challenges, integrating, remember
Genomics I metaphors
Genomics II post-genomic
What is really going on?  change, disruptive technologies, best practices, lessons learned, ongoing challenges, lead users,  really want reinventing, reinventing ,  technology strategy

mchitty@healthtech.com  Cambridge Healthtech Institute http://www.healthtech.com

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