NDLI: An integrated network platform for contextual prioritization of drugs and pathways.

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An integrated network platform for contextual prioritization of drugs and pathways.

Content Provider	World Health Organization (WHO)-Global Index Medicus
Author	Segura-Cabrera, Aldo Singh, Navneet Komurov, Kakajan
Description	Country affiliation: United States Author Affiliation: Segura-Cabrera A ( Cincinnati Children's Hospital Medical Center, Division of Experimental Hematology and Cancer Biology, 3333 Burnet Ave, Cincinnati, Ohio, USA. Kakajan.Komurov@cchmc.org.)
Abstract	Repurposing of drugs to novel disease indications has promise for faster clinical translation. However, identifying the best drugs for a given pathological context is not trivial. We developed an integrated random walk-based network framework that combines functional biomolecular relationships and known drug-target interactions as a platform for contextual prioritization of drugs, genes and pathways. We show that the use of gene-centric or drug-centric data, such as gene expression data or a phenotypic drug screen, respectively, within this network platform can effectively prioritize drugs and pathways, respectively, to the studied biological context. We demonstrate that various genomic data can be used as contextual cues to effectively prioritize drugs to the studied context, while similarly, phenotypic drug screen data can be used to effectively prioritize genes and pathways to the studied phenotypic context. As a proof-of-principle, we showcase the use of our platform to identify known and novel drug indications against different subsets of breast cancers through contextual prioritization based on genome-wide gene expression, shRNA and drug screen and clinical survival data. The integrated network and associated methods are incorporated into the NetWalker suite for functional genomics analysis ().
File Format	HTM / HTML
ISSN	1742206X
e-ISSN	17422051
DOI	10.1039/c5mb00444f
Journal	Molecular BioSystems
Issue Number	11
Volume Number	11
Language	English
Publisher	Royal Society of Chemistry
Publisher Date	2015-11-01
Publisher Place	Great Britain (UK)
Access Restriction	Open
Subject Keyword	Discipline Molecular Biology Discipline Biochemistry Algorithms Pharmaceutical Preparations Metabolism Signal Transduction Breast Neoplasms Pathology Cell Line, Tumor Cell Survival Computer Simulation Drug Repositioning Research Support, Non-u.s. Gov't
Content Type	Text
Resource Type	Article
Subject	Molecular Biology Biotechnology

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3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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