Large-scale data-driven integrative framework for extracting essential targets and processes from disease-associated gene data sets

Briefings in Bioinformatics
Gaston K MazanduNicola J Mulder

Abstract

Populations worldwide currently face several public health challenges, including growing prevalence of infections and the emergence of new pathogenic organisms. The cost and risk associated with drug development make the development of new drugs for several diseases, especially orphan or rare diseases, unappealing to the pharmaceutical industry. Proof of drug safety and efficacy is required before market approval, and rigorous testing makes the drug development process slow, expensive and frequently result in failure. This failure is often because of the use of irrelevant targets identified in the early steps of the drug discovery process, suggesting that target identification and validation are cornerstones for the success of drug discovery and development. Here, we present a large-scale data-driven integrative computational framework to extract essential targets and processes from an existing disease-associated data set and enhance target selection by leveraging drug-target-disease association at the systems level. We applied this framework to tuberculosis and Ebola virus diseases combining heterogeneous data from multiple sources, including protein-protein functional interaction, functional annotation and pharmaceutical data...Continue Reading

References

Mar 27, 2003·Molecular Microbiology·Christopher M SassettiEric J Rubin
Oct 22, 2003·Proceedings of the National Academy of Sciences of the United States of America·Christopher M Sassetti, Eric J Rubin
Apr 20, 2004·BMC Bioinformatics·Lan V ZhangFrederick P Roth
Aug 3, 2004·Nature Reviews. Drug Discovery·Ted T Ashburn, Karl B Thor
May 26, 2006·BMC Bioinformatics·Asa Ben-Hur, William Stafford Noble
Jun 6, 2006·The Journal of Antimicrobial Chemotherapy·Ping ChenCarol A Nacy
May 5, 2007·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Ji-Wen QiuHong-Qing Ling
Nov 14, 2007·International Journal of Biological Sciences·Mengjin Zhu, Shuhong Zhao
Nov 17, 2010·PLoS Computational Biology·Sarah L KinningsPhilip E Bourne
Apr 21, 2011·Briefings in Bioinformatics·Divya SardanaAnil G Jegga
Jun 22, 2011·Briefings in Bioinformatics·Joel T DudleyAtul J Butte
Aug 26, 2011·Nature·Jan E CaretteThijn R Brummelkamp
Dec 15, 2011·Journal of Biomedical Informatics·Sachin Mathur, Deendayal Dinakarpandian
Jun 6, 2012·Advances in Bioinformatics·Gaston K Mazandu, Nicola J Mulder
Jul 28, 2012·International Journal of Molecular Sciences·Gaston K Mazandu, Nicola J Mulder
Dec 4, 2012·Nucleic Acids Research·Andrea FranceschiniLars J Jensen
Dec 1, 2009·Expert Opinion on Drug Discovery·Nagasuma Chandra
Sep 27, 2013·BMC Bioinformatics·Gaston K Mazandu, Nicola J Mulder
Oct 1, 2013·BioMed Research International·Gaston K Mazandu, Nicola J Mulder
Nov 10, 2013·Nucleic Acids Research·Vivian LawDavid S Wishart
Dec 10, 2013·Nucleic Acids Research·Danielle WelterHelen Parkinson
Feb 26, 2014·BMC Systems Biology·Chao WuAnil G Jegga
Jun 3, 2014·BMC Bioinformatics·Gustavo A SalazarNicola J Mulder
Jul 16, 2014·Antiviral Research·St Patrick ReidSina Bavari
Nov 8, 2014·Computational and Structural Biotechnology Journal·Nicola J MulderHolifidy Rapanoel
Apr 3, 2015·Briefings in Bioinformatics·Jiao LiZhiyong Lu
Oct 20, 2015·Bioinformatics·Gaston K MazanduNicola J Mulder
Mar 26, 2016·Current Pharmaceutical Design·Gaurav Chopra, Ram Samudrala

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Citations

Aug 3, 2017·Cancer Medicine·Beverly A TeicherDavid Evans
Feb 13, 2019·Briefings in Bioinformatics·Xiangrong LiuXiangxiang Zeng
Nov 12, 2019·Briefings in Bioinformatics·Francis E AgamahEmile R Chimusa

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