Wren JD, Bekeredjian R, Stewart JA, Shohet RV, Garner HR "Knowledge discovery by automated identification and ranking of implicit relationships" BIOINFORMATICS 20 (3): 389-398 FEB 12 2004

[Eugene Garfield]

E-mail Addresses: Jonathan.Wren at ou.edu

Title: Knowledge discovery by automated identification and ranking of
implicit relationships

Author(s): Wren JD, Bekeredjian R, Stewart JA, Shohet RV, Garner HR

Source: BIOINFORMATICS 20 (3): 389-398 FEB 12 2004

Document Type: Article
Language: English
Cited References: 36      Times Cited: 5

Abstract:
Motivation: New relationships are often implicit from existing information,
but the amount and growth of published literature limits the scope of
analysis an individual can accomplish. Our goal was to develop and test a
computational method to identify relationships within scientific reports,
such that large sets of relationships between unrelated items could be
sought out and statistically ranked for their potential relevance as a set.

Results: We first construct a network of tentative relationships between
'objects' of biomedical research interest (e.g. genes, diseases, phenotypes,
chemicals) by identifying their co-occurrences within all electronically
available MEDLINE records. Relationships shared by two unrelated objects are
then ranked against a random network model to estimate the statistical
significance of any given grouping. When compared against known
relationships, we find that this ranking correlates with both the
probability and frequency of object co-occurrence, demonstrating the method
is well suited to discover novel relationships based upon existing shared
relationships. To test this, we identified compounds whose shared
relationships predicted they might affect the development and/or progression
of cardiac hypertrophy. When laboratory tests were performed in a rodent
model, chlorpromazine was found to reduce the progression of cardiac
hypertrophy.

Addresses: Wren JD (reprint author), Univ Oklahoma, Dept Bot & Microbiol,
Adv Ctr Genome Technol, 620 Parrington Oval Rm 106, Norman, OK 73019 USA
Univ Oklahoma, Dept Bot & Microbiol, Adv Ctr Genome Technol, Norman, OK
73019 USA
Univ Texas, SW Med Ctr, Dept Internal Med, Dallas, TX 75390 USA
Univ Texas, SW Med Ctr, Div Cardiol, Dallas, TX 75390 USA
Univ Texas, SW Med Ctr, McDermott Ctr Human Growth & Dev, Dept Biochem,Ctr
Biomed Invent, Dallas, TX 75390 USA

E-mail Addresses: Jonathan.Wren at ou.edu

Publisher: OXFORD UNIV PRESS, GREAT CLARENDON ST, OXFORD OX2 6DP, ENGLAND

IDS Number: 774PD
ISSN: 1367-4803

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