Comparative analysis of perturbed molecular pathways identified in in vitro and in vivo toxicology studies

Toxicology in Vitro

Volumn 26, Issue 6, 2012, Pages 956-962

  Wiesinger, Martin ^a   Mayer, Bernd ^a,b   Jennings, Paul ^c   Lukas, Arno ^a  

^a Emergentec Biodevelopment GmbH   (Austria)

^b UNIVERSITY OF VIENNA   (Austria)

^c INNSBRUCK MEDICAL UNIVERSITY   (Austria)

Author keywords

Biomarker; Literature mining; Model; Pathway; Prediction; Toxicity

Indexed keywords

BIOLOGICAL MARKER;

ARTICLE; CELLS; CENTRAL NERVOUS SYSTEM DISEASE; COMPARATIVE STUDY; DISEASE MARKER; GENE; GENE IDENTIFICATION; HEME OXYGENASE 1 GENE; HUMAN; IN VITRO STUDY; IN VIVO STUDY; LIVER TOXICITY; MOLECULAR GENETICS; NEPHROTOXICITY; NEUROTOXICITY; NF KAPPA B GENE; NITRIC OXIDE SYNTHASE 2 GENE; P53 GENE; TOXICITY TESTING;

EID: 84863816109     PISSN: 08872333     EISSN: 18793177     Source Type: Journal    
DOI: 10.1016/j.tiv.2012.03.018     Document Type: Article

References (20)

1. Aardema M.J., MacGregor J.T. Toxicology and genetic toxicology in the new era of "toxicogenomics": impact of "-omics" technologies. Mutat. Res., Fundam. Mol. Mech. Mutagen 2002, 499:13-25.
2. Blaauboer B.J. The necessity of biokinetic information in the interpretation of in vitro toxicity data. Altern. Lab. Anim. 2002, 30(Suppl. 2):85-91.
3. Bushel P.R., Heinloth A.N., Li J., Huang L., Chou J.W., Boorman G.A., Malarkey D.E., Houle C.D., Ward S.M., Wilson R.E., Fannin R.D., Russo M.W., Watkins P.B., Tennant R.W., Paules R.S. Blood gene expression signatures predict exposure levels. Proc. Natl. Acad. Sci. USA 2007, 104:18211-18216.
4. Chen G., Shaw M.H., Kim Y.-G., Nuñez G. NOD-like receptors: role in innate immunity and inflammatory disease. Annu. Rev. Pathol. 2009, 4:365-398.
5. Coletti M.H., Bleich H.L. Medical subject headings used to search the biomedical literature. J. Am. Med. Inform. Assoc. 2001, 8:317-323.
6. Cui Y., Paules R.S. Use of transcriptomics in understanding mechanisms of drug-induced toxicity. Pharmacogenomics 2010, 11:573-585.
7. Eisenbrand G., Pool-Zobel B., Baker V., Balls M., Blaauboer B.J., Boobis A., Carere A., Kevekordes S., Lhuguenot J.-C., Pieters R., Kleiner J. Methods of in vitro toxicology. Food Chem. Toxicol. 2002, 40:193-236.
8. Gozzelino R., Jeney V., Soares M.P. Mechanisms of cell protection by heme oxygenase-1. Annu. Rev. Pharmacol. Toxicol. 2010, 50:323-354.
9. Gentleman R.C., Carey V.J., Bates D.M., Bolstad B., Dettling M., Dudoit S., Ellis B., Gautier L., Ge Y., Gentry J., Hornik K., Hothorn T., Huber W., Iacus S., Irizarry R., Leisch F., Li C., Maechler M., Rossini A.J., Sawitzki G., Smith C., Smyth G., Tierney L., Yang J.Y., Zhang J. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol. 2004, 5:R80.
10. Kanehisa M., Goto S., Furumichi M., Tanabe M., Hirakawa M. KEGG for representation and analysis of molecular networks involving diseases and drugs. Nucleic Acids Res. 2010, 38:D355-D360.
11. Kanehisa M., Goto S., Hattori M., Aoki-Kinoshita K.F., Itoh M., Kawashima S., Katayama T., Araki M., Hirakawa M. From genomics to chemical genomics: new developments in KEGG. Nucleic Acids Res. 2006, 34:D354-D357.
12. Limonciel A., Aschauer L., Wilmes A., Prajczer S., Leonard M.O., Pfaller W., Jennings P. Lactate is an ideal non-invasive marker for evaluating temporal alterations in cell stress and toxicity in repeat dose testing regimes. Toxicol. In Vitro 2011, 25:1855-1862.
13. Maglott D., Ostell J., Pruitt K.D., Tatusova T. Entrez gene: gene-centered information at NCBI. Nucleic Acids Res. 2011, 39:D52-D57.
14. Mendrick D.L. Genomic and genetic biomarkers of toxicity. Toxicology 2008, 245:175-181.
15. Merrick B.A., Bruno M.E. Genomic and proteomic profiling for biomarkers and signature profiles of toxicity. Curr. Opin. Mol. Ther. 2004, 6:600-607.
16. North M., Vulpe C.D. Functional toxicogenomics: mechanism-centered toxicology. Int. J. Mol. Sci. 2010, 11:4796-4813.
17. Sayers E.W., Barrett T., Benson D.A., Bolton E., Bryant S.H., Canese K., Chetvernin V., Church D.M., DiCuccio M., Federhen S., Feolo M., Fingerman I.M., Geer L.Y., Helmberg W., Kapustin Y., Landsman D., Lipman D.J., Lu Z., Madden T.L., Madej T., Maglott D.R., Marchler-Bauer A., Miller V., Mizrachi I., Ostell J., Panchenko A., Phan L., Pruitt K.D., Schuler G.D., Sequeira E., Sherry S.T., Shumway M., Sirotkin K., Slotta D., Souvorov A., Starchenko G., Tatusova T.A., Wagner L., Wang Y., Wilbur W.J., Yaschenko E., Ye J. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 2011, 39:D38-D51.
18. Scatena R., Bottoni P., Botta G., Martorana G.E., Giardina B. The role of mitochondria in pharmacotoxicology: a reevaluation of an old, newly emerging topic. Am. J. Physiol. 2007, 293:C12-C21.
19. Suter L., Schroeder S., Meyer K., Gautier J.-C., Amberg A., Wendt M., Gmuender H., Mally A., Boitier E., Ellinger-Ziegelbauer H., Matheis K., Pfannkuch F. EU framework 6 project: predictive toxicology (PredTox)-overview and outcome. Toxicol. Appl. Pharmacol. 2011, 252:73-84.
20. Wilmes A., Crean D., Aydin S., Pfaller W., Jennings P., Leonard M.O. Identification and dissection of the Nrf2 mediated oxidative stress pathway in human renal proximal tubule toxicity. Toxicol. In Vitro 2011, 25:613-622.