Literature DB >> 21849663

The emergence of genome-based drug repositioning.

Yves A Lussier1, James L Chen.   

Abstract

In a pair of papers in this issue of Science Translational Medicine, Butte et al. provide a concrete example of how reinterpreting and comparing genome-wide metrics allows us to effectively hypothesize which drugs from one disease-indication can be repurposed for another disease. The shift toward integrative genome-wide computational approaches has precedence in insightful scalar theories of biological information. Here, we discuss how this recent work in drug repurposing adheres to and takes advantage of the concepts surrounding this information paradigm.

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Year:  2011        PMID: 21849663      PMCID: PMC4262402          DOI: 10.1126/scitranslmed.3001512

Source DB:  PubMed          Journal:  Sci Transl Med        ISSN: 1946-6234            Impact factor:   17.956


  18 in total

1.  Reductionism and complexity in molecular biology. Scientists now have the tools to unravel biological and overcome the limitations of reductionism.

Authors:  Marc H V Van Regenmortel
Journal:  EMBO Rep       Date:  2004-11       Impact factor: 8.807

2.  Drug discovery. Repurposing with a difference.

Authors:  Mark S Boguski; Kenneth D Mandl; Vikas P Sukhatme
Journal:  Science       Date:  2009-06-12       Impact factor: 47.728

3.  Central dogma of molecular biology.

Authors:  F Crick
Journal:  Nature       Date:  1970-08-08       Impact factor: 49.962

4.  Gene pathways associated with prognosis and chemotherapy sensitivity in molecular subtypes of breast cancer.

Authors:  Takayuki Iwamoto; Giampaolo Bianchini; Daniel Booser; Yuan Qi; Charles Coutant; Christine Ya-Hui Shiang; Libero Santarpia; Junji Matsuoka; Gabriel N Hortobagyi; William Fraser Symmans; Frankie A Holmes; Joyce O'Shaughnessy; Beth Hellerstedt; John Pippen; Fabrice Andre; Richard Simon; Lajos Pusztai
Journal:  J Natl Cancer Inst       Date:  2010-12-29       Impact factor: 13.506

5.  Discovery and preclinical validation of drug indications using compendia of public gene expression data.

Authors:  Marina Sirota; Joel T Dudley; Jeewon Kim; Annie P Chiang; Alex A Morgan; Alejandro Sweet-Cordero; Julien Sage; Atul J Butte
Journal:  Sci Transl Med       Date:  2011-08-17       Impact factor: 17.956

6.  Computational repositioning of the anticonvulsant topiramate for inflammatory bowel disease.

Authors:  Joel T Dudley; Marina Sirota; Mohan Shenoy; Reetesh K Pai; Silke Roedder; Annie P Chiang; Alex A Morgan; Minnie M Sarwal; Pankaj Jay Pasricha; Atul J Butte
Journal:  Sci Transl Med       Date:  2011-08-17       Impact factor: 17.956

7.  Gene expression phenotypic models that predict the activity of oncogenic pathways.

Authors:  Erich Huang; Seiichi Ishida; Jennifer Pittman; Holly Dressman; Andrea Bild; Mark Kloos; Mark D'Amico; Richard G Pestell; Mike West; Joseph R Nevins
Journal:  Nat Genet       Date:  2003-06       Impact factor: 38.330

8.  Generating genome-scale candidate gene lists for pharmacogenomics.

Authors:  N T Hansen; S Brunak; R B Altman
Journal:  Clin Pharmacol Ther       Date:  2009-04-15       Impact factor: 6.875

9.  PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes.

Authors:  Vamsi K Mootha; Cecilia M Lindgren; Karl-Fredrik Eriksson; Aravind Subramanian; Smita Sihag; Joseph Lehar; Pere Puigserver; Emma Carlsson; Martin Ridderstråle; Esa Laurila; Nicholas Houstis; Mark J Daly; Nick Patterson; Jill P Mesirov; Todd R Golub; Pablo Tamayo; Bruce Spiegelman; Eric S Lander; Joel N Hirschhorn; David Altshuler; Leif C Groop
Journal:  Nat Genet       Date:  2003-07       Impact factor: 38.330

10.  PREDICT: a method for inferring novel drug indications with application to personalized medicine.

Authors:  Assaf Gottlieb; Gideon Y Stein; Eytan Ruppin; Roded Sharan
Journal:  Mol Syst Biol       Date:  2011-06-07       Impact factor: 11.429

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  29 in total

1.  Translating cancer 'omics' to improved outcomes.

Authors:  Emily A Vucic; Kelsie L Thu; Keith Robison; Leszek A Rybaczyk; Raj Chari; Carlos E Alvarez; Wan L Lam
Journal:  Genome Res       Date:  2012-02       Impact factor: 9.043

2.  Opportunities for Patient Matching Algorithms to Improve Patient Care in Oncology.

Authors:  Travis Johnson; David Liebner; James L Chen
Journal:  JCO Clin Cancer Inform       Date:  2017-11

Review 3.  A network perspective on unraveling the role of TRP channels in biology and disease.

Authors:  Jung Nyeo Chun; Jin Muk Lim; Young Kang; Eung Hee Kim; Young-Cheul Shin; Hong-Gee Kim; Dayk Jang; Dongseop Kwon; Soo-Yong Shin; Insuk So; Ju-Hong Jeon
Journal:  Pflugers Arch       Date:  2013-05-16       Impact factor: 3.657

4.  Orthopedic gene therapy--lost in translation?

Authors:  C H Evans; S C Ghivizzani; P D Robbins
Journal:  J Cell Physiol       Date:  2012-02       Impact factor: 6.384

Review 5.  CANDO and the infinite drug discovery frontier.

Authors:  Mark Minie; Gaurav Chopra; Geetika Sethi; Jeremy Horst; George White; Ambrish Roy; Kaushik Hatti; Ram Samudrala
Journal:  Drug Discov Today       Date:  2014-06-26       Impact factor: 7.851

Review 6.  Translational bioinformatics embraces big data.

Authors:  N H Shah
Journal:  Yearb Med Inform       Date:  2012

7.  Gene expression signature-based approach identifies a pro-resolving mechanism of action for histone deacetylase inhibitors.

Authors:  T Montero-Melendez; J Dalli; M Perretti
Journal:  Cell Death Differ       Date:  2012-12-07       Impact factor: 15.828

8.  Drug-target interaction prediction by integrating chemical, genomic, functional and pharmacological data.

Authors:  Fan Yang; Jinbo Xu; Jianyang Zeng
Journal:  Pac Symp Biocomput       Date:  2014

Review 9.  Toward better drug repositioning: prioritizing and integrating existing methods into efficient pipelines.

Authors:  Guangxu Jin; Stephen T C Wong
Journal:  Drug Discov Today       Date:  2013-11-14       Impact factor: 7.851

10.  DISCOVERY OF MOLECULARLY TARGETED THERAPIES.

Authors:  Kelly Regan; Zachary Abrams; Michael Sharpnack; Arunima Srivastava; Kun Huang; Nigam Shah; Philip R O Payne
Journal:  Pac Symp Biocomput       Date:  2016
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