Literature DB >> 19741703

Molecular networks as sensors and drivers of common human diseases.

Eric E Schadt1.   

Abstract

The molecular biology revolution led to an intense focus on the study of interactions between DNA, RNA and protein biosynthesis in order to develop a more comprehensive understanding of the cell. One consequence of this focus was a reduced attention to whole-system physiology, making it difficult to link molecular biology to clinical medicine. Equipped with the tools emerging from the genomics revolution, we are now in a position to link molecular states to physiological ones through the reverse engineering of molecular networks that sense DNA and environmental perturbations and, as a result, drive variations in physiological states associated with disease.

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Year:  2009        PMID: 19741703     DOI: 10.1038/nature08454

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


  48 in total

1.  Inferring subnetworks from perturbed expression profiles.

Authors:  D Pe'er; A Regev; G Elidan; N Friedman
Journal:  Bioinformatics       Date:  2001       Impact factor: 6.937

2.  Evidence for dynamically organized modularity in the yeast protein-protein interaction network.

Authors:  Jing-Dong J Han; Nicolas Bertin; Tong Hao; Debra S Goldberg; Gabriel F Berriz; Lan V Zhang; Denis Dupuy; Albertha J M Walhout; Michael E Cusick; Frederick P Roth; Marc Vidal
Journal:  Nature       Date:  2004-06-09       Impact factor: 49.962

3.  Integrating genotypic and expression data in a segregating mouse population to identify 5-lipoxygenase as a susceptibility gene for obesity and bone traits.

Authors:  Margarete Mehrabian; Hooman Allayee; Jirina Stockton; Pek Yee Lum; Thomas A Drake; Lawrence W Castellani; Michael Suh; Christopher Armour; Stephen Edwards; John Lamb; Aldons J Lusis; Eric E Schadt
Journal:  Nat Genet       Date:  2005-10-02       Impact factor: 38.330

4.  Identification of inflammatory gene modules based on variations of human endothelial cell responses to oxidized lipids.

Authors:  Peter S Gargalovic; Minori Imura; Bin Zhang; Nima M Gharavi; Michael J Clark; Joanne Pagnon; Wen-Pin Yang; Aiqing He; Amy Truong; Shilpa Patel; Stanley F Nelson; Steve Horvath; Judith A Berliner; Todd G Kirchgessner; Aldons J Lusis
Journal:  Proc Natl Acad Sci U S A       Date:  2006-08-15       Impact factor: 11.205

5.  CFH haplotypes without the Y402H coding variant show strong association with susceptibility to age-related macular degeneration.

Authors:  Mingyao Li; Pelin Atmaca-Sonmez; Mohammad Othman; Kari E H Branham; Ritu Khanna; Michael S Wade; Yun Li; Liming Liang; Sepideh Zareparsi; Anand Swaroop; Gonçalo R Abecasis
Journal:  Nat Genet       Date:  2006-08-27       Impact factor: 38.330

6.  A common genetic risk factor for colorectal and prostate cancer.

Authors:  Christopher A Haiman; Loïc Le Marchand; Jennifer Yamamato; Daniel O Stram; Xin Sheng; Laurence N Kolonel; Anna H Wu; David Reich; Brian E Henderson
Journal:  Nat Genet       Date:  2007-07-08       Impact factor: 38.330

7.  Six new loci associated with blood low-density lipoprotein cholesterol, high-density lipoprotein cholesterol or triglycerides in humans.

Authors:  Sekar Kathiresan; Olle Melander; Candace Guiducci; Aarti Surti; Noël P Burtt; Mark J Rieder; Gregory M Cooper; Charlotta Roos; Benjamin F Voight; Aki S Havulinna; Björn Wahlstrand; Thomas Hedner; Dolores Corella; E Shyong Tai; Jose M Ordovas; Göran Berglund; Erkki Vartiainen; Pekka Jousilahti; Bo Hedblad; Marja-Riitta Taskinen; Christopher Newton-Cheh; Veikko Salomaa; Leena Peltonen; Leif Groop; David M Altshuler; Marju Orho-Melander
Journal:  Nat Genet       Date:  2008-01-13       Impact factor: 38.330

Review 8.  RNA-Seq: a revolutionary tool for transcriptomics.

Authors:  Zhong Wang; Mark Gerstein; Michael Snyder
Journal:  Nat Rev Genet       Date:  2009-01       Impact factor: 53.242

9.  Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling.

Authors:  Nicholas T Ingolia; Sina Ghaemmaghami; John R S Newman; Jonathan S Weissman
Journal:  Science       Date:  2009-02-12       Impact factor: 47.728

10.  Newly identified loci that influence lipid concentrations and risk of coronary artery disease.

Authors:  Cristen J Willer; Serena Sanna; Anne U Jackson; Angelo Scuteri; Lori L Bonnycastle; Robert Clarke; Simon C Heath; Nicholas J Timpson; Samer S Najjar; Heather M Stringham; James Strait; William L Duren; Andrea Maschio; Fabio Busonero; Antonella Mulas; Giuseppe Albai; Amy J Swift; Mario A Morken; Narisu Narisu; Derrick Bennett; Sarah Parish; Haiqing Shen; Pilar Galan; Pierre Meneton; Serge Hercberg; Diana Zelenika; Wei-Min Chen; Yun Li; Laura J Scott; Paul A Scheet; Jouko Sundvall; Richard M Watanabe; Ramaiah Nagaraja; Shah Ebrahim; Debbie A Lawlor; Yoav Ben-Shlomo; George Davey-Smith; Alan R Shuldiner; Rory Collins; Richard N Bergman; Manuela Uda; Jaakko Tuomilehto; Antonio Cao; Francis S Collins; Edward Lakatta; G Mark Lathrop; Michael Boehnke; David Schlessinger; Karen L Mohlke; Gonçalo R Abecasis
Journal:  Nat Genet       Date:  2008-01-13       Impact factor: 38.330

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  339 in total

1.  Statistical inference and reverse engineering of gene regulatory networks from observational expression data.

Authors:  Frank Emmert-Streib; Galina V Glazko; Gökmen Altay; Ricardo de Matos Simoes
Journal:  Front Genet       Date:  2012-02-03       Impact factor: 4.599

2.  Construction of regulatory networks using expression time-series data of a genotyped population.

Authors:  Ka Yee Yeung; Kenneth M Dombek; Kenneth Lo; John E Mittler; Jun Zhu; Eric E Schadt; Roger E Bumgarner; Adrian E Raftery
Journal:  Proc Natl Acad Sci U S A       Date:  2011-11-14       Impact factor: 11.205

Review 3.  Identification of aberrant pathways and network activities from high-throughput data.

Authors:  Jinlian Wang; Yuji Zhang; Catalin Marian; Habtom W Ressom
Journal:  Brief Bioinform       Date:  2012-01-27       Impact factor: 11.622

4.  Pathway analysis of genome-wide association study for bone mineral density.

Authors:  Young Ho Lee; Sung Jae Choi; Jong Dae Ji; Gwan Gyu Song
Journal:  Mol Biol Rep       Date:  2012-04-25       Impact factor: 2.316

5.  Transcription factor 4 as an important determinant of gating function in schizophrenia.

Authors:  Panos Roussos
Journal:  Proc Natl Acad Sci U S A       Date:  2012-04-05       Impact factor: 11.205

Review 6.  Cellular genomics for complex traits.

Authors:  Emmanouil T Dermitzakis
Journal:  Nat Rev Genet       Date:  2012-02-14       Impact factor: 53.242

7.  Two-step epigenetic Mendelian randomization: a strategy for establishing the causal role of epigenetic processes in pathways to disease.

Authors:  Caroline L Relton; George Davey Smith
Journal:  Int J Epidemiol       Date:  2012-02       Impact factor: 7.196

8.  Identification of additional loci associated with antibody response to Mycobacterium avium ssp. Paratuberculosis in cattle by GSEA-SNP analysis.

Authors:  Marcello Del Corvo; Mario Luini; Alessandra Stella; Giulio Pagnacco; Paolo Ajmone-Marsan; John L Williams; Giulietta Minozzi
Journal:  Mamm Genome       Date:  2017-09-01       Impact factor: 2.957

9.  Cancer cell profiling by barcoding allows multiplexed protein analysis in fine-needle aspirates.

Authors:  Adeeti V Ullal; Vanessa Peterson; Sarit S Agasti; Suan Tuang; Dejan Juric; Cesar M Castro; Ralph Weissleder
Journal:  Sci Transl Med       Date:  2014-01-15       Impact factor: 17.956

10.  A network-based kernel machine test for the identification of risk pathways in genome-wide association studies.

Authors:  Saskia Freytag; Juliane Manitz; Martin Schlather; Thomas Kneib; Christopher I Amos; Angela Risch; Jenny Chang-Claude; Joachim Heinrich; Heike Bickeböller
Journal:  Hum Hered       Date:  2014-01-14       Impact factor: 0.444

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