Literature DB >> 18950280

Systems biology and functional genomics approaches for the identification of cellular responses to drug toxicity.

Alison Hege Harrill1, Ivan Rusyn.   

Abstract

Extensive growth in the field of molecular biology in recent decades has led to the development of new and powerful experimental and computational tools that enable the analysis of complex biological responses to chemical exposure on both a functional and structural genetic level. The ability to profile global responses on a transcriptional level has become a valuable resource in the science of toxicology and attempts are now being made to further understand toxicity mechanisms by incorporating metabolomics and proteomics approaches. In addition, recent progress in understanding the extent of the genetic diversity within and between species allows us to take a fresh look at research on genetic polymorphisms that may influence an individual's susceptibility to toxicity. Whereas new technologies have the potential to make a sizeable impact on our understanding of the mechanisms of toxicity, considerable challenges remain to be addressed, especially with regard to the regulatory acceptance and successful integration of omics data. This review highlights recent advancements in the application of functional and structural genomics techniques to chemical hazard identification and characterization, and to the understanding of the interindividual differences in susceptibility to adverse drug reactions.

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Mesh:

Year:  2008        PMID: 18950280      PMCID: PMC2614284          DOI: 10.1517/17425255.4.11.1379

Source DB:  PubMed          Journal:  Expert Opin Drug Metab Toxicol        ISSN: 1742-5255            Impact factor:   4.481


  82 in total

Review 1.  Genetic associations in large versus small studies: an empirical assessment.

Authors:  John P A Ioannidis; Thomas A Trikalinos; Evangelia E Ntzani; Despina G Contopoulos-Ioannidis
Journal:  Lancet       Date:  2003-02-15       Impact factor: 79.321

Review 2.  Toxicogenomics in drug discovery and drug development: potential applications and future challenges.

Authors:  Tin Oo Khor; Sherif Ibrahim; Ah-Ng Tony Kong
Journal:  Pharm Res       Date:  2006-08       Impact factor: 4.200

3.  Human susceptibility to viral infection: the search for HIV-protective alleles among Africans by means of genome-wide studies.

Authors:  Joseph Donfack; Farrel J Buchinsky; J Christopher Post; Garth D Ehrlich
Journal:  AIDS Res Hum Retroviruses       Date:  2006-10       Impact factor: 2.205

4.  Elucidation of gene-to-gene and metabolite-to-gene networks in arabidopsis by integration of metabolomics and transcriptomics.

Authors:  Masami Yokota Hirai; Marion Klein; Yuuta Fujikawa; Mitsuru Yano; Dayan B Goodenowe; Yasuyo Yamazaki; Shigehiko Kanaya; Yukiko Nakamura; Masahiko Kitayama; Hideyuki Suzuki; Nozomu Sakurai; Daisuke Shibata; Jim Tokuhisa; Michael Reichelt; Jonathan Gershenzon; Jutta Papenbrock; Kazuki Saito
Journal:  J Biol Chem       Date:  2005-05-02       Impact factor: 5.157

5.  Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.

Authors:  Aravind Subramanian; Pablo Tamayo; Vamsi K Mootha; Sayan Mukherjee; Benjamin L Ebert; Michael A Gillette; Amanda Paulovich; Scott L Pomeroy; Todd R Golub; Eric S Lander; Jill P Mesirov
Journal:  Proc Natl Acad Sci U S A       Date:  2005-09-30       Impact factor: 11.205

6.  Validation of putative genomic biomarkers of nephrotoxicity in rats.

Authors:  Er-Jia Wang; Ronald D Snyder; Mark R Fielden; Roger J Smith; Yi-Zhong Gu
Journal:  Toxicology       Date:  2008-01-16       Impact factor: 4.221

Review 7.  Pharmacogenetic basis for therapeutic optimization in Alzheimer's disease.

Authors:  Ramón Cacabelos
Journal:  Mol Diagn Ther       Date:  2007       Impact factor: 4.074

Review 8.  Toxicity testing in the 21st century: a vision and a strategy.

Authors:  Steven Gibb
Journal:  Reprod Toxicol       Date:  2007-11-01       Impact factor: 3.143

9.  Use of a dense single nucleotide polymorphism map for in silico mapping in the mouse.

Authors:  Mathew T Pletcher; Philip McClurg; Serge Batalov; Andrew I Su; S Whitney Barnes; Erica Lagler; Ron Korstanje; Xiaosong Wang; Deborah Nusskern; Molly A Bogue; Richard J Mural; Beverly Paigen; Tim Wiltshire
Journal:  PLoS Biol       Date:  2004-11-09       Impact factor: 8.029

10.  Comparative analysis of haplotype association mapping algorithms.

Authors:  Phillip McClurg; Mathew T Pletcher; Tim Wiltshire; Andrew I Su
Journal:  BMC Bioinformatics       Date:  2006-02-09       Impact factor: 3.169

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  12 in total

1.  Evaluation of an in vitro toxicogenetic mouse model for hepatotoxicity.

Authors:  Stephanie M Martinez; Blair U Bradford; Valerie Y Soldatow; Oksana Kosyk; Amelia Sandot; Rafal Witek; Robert Kaiser; Todd Stewart; Kirsten Amaral; Kimberly Freeman; Chris Black; Edward L LeCluyse; Stephen S Ferguson; Ivan Rusyn
Journal:  Toxicol Appl Pharmacol       Date:  2010-09-24       Impact factor: 4.219

Review 2.  Use of transcriptomics in understanding mechanisms of drug-induced toxicity.

Authors:  Yuxia Cui; Richard S Paules
Journal:  Pharmacogenomics       Date:  2010-04       Impact factor: 2.533

3.  Population-based dose-response analysis of liver transcriptional response to trichloroethylene in mouse.

Authors:  Abhishek Venkatratnam; John S House; Kranti Konganti; Connor McKenney; David W Threadgill; Weihsueh A Chiu; David L Aylor; Fred A Wright; Ivan Rusyn
Journal:  Mamm Genome       Date:  2018-01-20       Impact factor: 2.957

4.  In vitro screening for population variability in chemical toxicity.

Authors:  Shannon H O'Shea; John Schwarz; Oksana Kosyk; Pamela K Ross; Min Jin Ha; Fred A Wright; Ivan Rusyn
Journal:  Toxicol Sci       Date:  2010-10-15       Impact factor: 4.849

Review 5.  A new method for the evaluation of vaccine safety based on comprehensive gene expression analysis.

Authors:  Haruka Momose; Takuo Mizukami; Masaki Ochiai; Isao Hamaguchi; Kazunari Yamaguchi
Journal:  J Biomed Biotechnol       Date:  2010-06-13

6.  Development of an ultraperformance liquid chromatography/mass spectrometry method to quantify cisplatin 1,2 intrastrand guanine-guanine adducts.

Authors:  Irene M Baskerville-Abraham; Gunnar Boysen; J Mitchell Troutman; Esra Mutlu; Leonard Collins; Kathryn E Dekrafft; Wenbin Lin; Candice King; Stephen G Chaney; James A Swenberg
Journal:  Chem Res Toxicol       Date:  2009-05       Impact factor: 3.739

7.  Computational toxicology: realizing the promise of the toxicity testing in the 21st century.

Authors:  Ivan Rusyn; George P Daston
Journal:  Environ Health Perspect       Date:  2010-05-18       Impact factor: 9.031

Review 8.  The role of molecular biology in the biomonitoring of human exposure to chemicals.

Authors:  Balam Muñoz; Arnulfo Albores
Journal:  Int J Mol Sci       Date:  2010-11-12       Impact factor: 5.923

Review 9.  Animal-Free Chemical Safety Assessment.

Authors:  George D Loizou
Journal:  Front Pharmacol       Date:  2016-07-21       Impact factor: 5.810

10.  Dissecting the Effect of Genetic Variation on the Hepatic Expression of Drug Disposition Genes across the Collaborative Cross Mouse Strains.

Authors:  Aharon Nachshon; Hanifa J Abu-Toamih Atamni; Yael Steuerman; Roa'a Sheikh-Hamed; Alexandra Dorman; Richard Mott; Juliane C Dohm; Hans Lehrach; Marc Sultan; Ron Shamir; Sascha Sauer; Heinz Himmelbauer; Fuad A Iraqi; Irit Gat-Viks
Journal:  Front Genet       Date:  2016-10-05       Impact factor: 4.599

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