Literature-Based Discovery

ISBN-13: 9783540686859 / Angielski / Twarda / 2008 / 198 str.

Peter Bruza; Marc Weeber

Opis

When Don Swanson hypothesized a connection between Raynaud s phenomenon anddietary?shoil, the?eldofliterature-baseddiscovery(LBD)wasborn. During thesubsequenttwodecadesasteadystreamofresearchershavepublishedarticles aboutLBDandthe?eldhasmadesteadyprogressinlayingfoundationsandc- ating an identity. It is curiously signi?cant that LBD is not owned by any p- ticulardiscipline, forexample, knowledge discoveryortextmining. Rather, LBD researchersoriginatefromarangeof?eldsincludinginformationscience, infor- tionretrieval, logic, andthebiomedicalsciences. Thisre?ectsthefactLBDisan inherentlymulti-disciplinaryenterprisewherecollaborationsbetweentheinfor- tionandbiomedicalsciencesarereadilyencountered. Thismulti-disciplinaryaspect ofLBDhasmadeitharderforthe?eldtoplanta?ag, sotospeak. Thepresentv- umecanbeseenasanattempttoredressthis. Itpresentschaptersprovidingabroad brushstrokeofLBDbyleadingresearchersprovidinganoverviewofthestateofthe art, themodelsandtheoriesused, experimentalstudies, lessonslearnt, application areas, andfuturechallenges. Inshort, itattemptstoconveyalearnedimpressionof whereandhowLBDisbeingdeployed. DonSwansonhaskindlyagreedtoprovide theintroductorychapter. Itisthehopeandintentionthatthisvolumewillplanta ?aginthegroundandinspirenewresearcherstotheLBDchallenge. PeterBruza July2007 MarcWeeber v Contents Preface. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . v Contributors. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ix Part I General Outlook and Possibilities Literature-Based Discovery? The Very Idea . . . . . . . . . . . . . . . . . . . . . . . . . 3 D. R. Swanson The Place of Literature-Based Discovery in Contemporary Scienti?c Practice . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 13 NeilR. SmalheiserandVetleI. Torvik The Tip of the Iceberg: The Quest for Innovation at the Base of the Pyramid. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 23 M. D. GordonandN. F. Awad The Open Discovery Challenge. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 39 JonathanD. Wren Where is the Discovery in Literature-Based Discovery?. . . . . . . . . . . . . . . . 57 R. N. Kostoff Part II Methodology and Applications Analyzing LBD Methods using a General Framework. . . . . . . . . . . . . . . . . 75 A. K. Sehgal, X. Y. Qiu, andP. Srinivasan Evaluation of Literature-Based Discovery Systems. . . . . . . . . . . . . . . . . . . . 101 M. Yetisgen-YildizandW. Pratt vii viii Contents Factor Analytic Approach to Transitive Text Mining using Medline Descriptors. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 115 J. StegmannandG. Grohmann Literature-Based Knowledge Discovery using Natural Language Processing . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 133 D. Hristovski, C. Friedman, T. C. Rind?esch, andB. Peterlin Information Retrieval in Literature-Based Discovery. . . . . . . . . . . . . . . . . . 153 W. Hersh Biomedical Application of Knowledge Discovery . . . . . . . . . . . . . . . . . . . . . 173 A. Koike Index. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 193 Contributors NeveenFaragAwad SchoolofBusiness, WayneStateUniversity, USA CarolFriedman DepartmentofBiomedicalInformatics, ColumbiaUniversity,622West168St, NewYork, NY10032, USA MichaelD. Gordon RossSchoolofBusiness, UniversityofMichigan, USA mdgordon@umich. edu GuenterGrohmann Charite-Institute ofMedicalInformatics,12203Berlin, Germany guenter. grohmann@charite. de WilliamHersh DepartmentofMedicalInformaticsandClinicalEpidemiology, SchoolofMedicine, OregonHealthandScienceUniversity, 3181SWSamJacksonParkRd., Portland, OR97239, USA hersh@ohsu. edu DimitarHristovski InstituteofBiomedicalInformatics, MedicalFaculty, UniversityofLjubljana, Vrazovtrg2/2,1104Ljubljana, Slovenia dimitar. hristovski@mf. uni-lj. si AsakoKoike CentralResearchLaborato

Spis treści

General Outlook and Possibilities.- Literature-Based Discovery? The Very Idea.- The Place of Literature-Based Discovery in Contemporary Scientific Practice.- The Tip of the Iceberg: The Quest for Innovation at the Base of the Pyramid.- The ‘Open Discovery’ Challenge.- Where is the Discovery in Literature-Based Discovery?.- Methodology and Applications.- Analyzing LBD Methods using a General Framework.- Evaluation of Literature-Based Discovery Systems.- Factor Analytic Approach to Transitive Text Mining using Medline Descriptors.- Literature-Based Knowledge Discovery using Natural Language Processing.- Information Retrieval in Literature-Based Discovery.- Biomedical Application of Knowledge Discovery.

Blurb

When Don Swanson hypothesized a connection between Raynaud’s phenomenon and dietary fish oil, the field of literature-based discovery (LBD) was born. During the subsequent two decades a steady stream of researchers have published articles about LBD and the field has made steady progress in laying foundations and creating an identity. LBD is an inherently multi-disciplinary enterprise where collaborations between the information and biomedical sciences are readily encountered. It is the hope and intention that this volume will plant a flag in the ground and inspire new researchers to the LBD challenge.