{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,17]],"date-time":"2026-04-17T04:31:47Z","timestamp":1776400307230,"version":"3.51.2"},"reference-count":55,"publisher":"Public Library of Science (PLoS)","issue":"3","content-domain":{"domain":["www.ploscompbiol.org"],"crossmark-restriction":false},"short-container-title":["PLoS Comput Biol"],"DOI":"10.1371\/journal.pcbi.1001113","type":"journal-article","created":{"date-parts":[[2011,3,31]],"date-time":"2011-03-31T20:14:45Z","timestamp":1301602485000},"page":"e1001113","update-policy":"https:\/\/doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":80,"title":["Consensus-Phenotype Integration of Transcriptomic and Metabolomic Data Implies a Role for Metabolism in the Chemosensitivity of Tumour Cells"],"prefix":"10.1371","volume":"7","author":[{"given":"Rachel","family":"Cavill","sequence":"first","affiliation":[]},{"given":"Atanas","family":"Kamburov","sequence":"additional","affiliation":[]},{"given":"James K.","family":"Ellis","sequence":"additional","affiliation":[]},{"given":"Toby J.","family":"Athersuch","sequence":"additional","affiliation":[]},{"given":"Marcus S. C.","family":"Blagrove","sequence":"additional","affiliation":[]},{"given":"Ralf","family":"Herwig","sequence":"additional","affiliation":[]},{"given":"Timothy M. D.","family":"Ebbels","sequence":"additional","affiliation":[]},{"given":"Hector C.","family":"Keun","sequence":"additional","affiliation":[]}],"member":"340","published-online":{"date-parts":[[2011,3,31]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"361","DOI":"10.1016\/j.pnmrs.2009.07.003","article-title":"Bioinformatic methods in NMR-based metabolic profiling.","volume":"55","author":"TMD Ebbels","year":"2009","journal-title":"Prog Nucl Mag Res Sp"},{"key":"ref2","doi-asserted-by":"crossref","first-page":"1586","DOI":"10.1021\/pr0503376","article-title":"Systems Toxicology: Integrated Genomic, Proteomic and Metabonomic Analysis of Methapyrilene Induced Hepatotoxicity in the Rat.","volume":"5","author":"A Craig","year":"2006","journal-title":"J Proteome Res"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"10205","DOI":"10.1073\/pnas.0403218101","article-title":"Integration of transcriptomics and metabolomics for understanding of global responses to nutritional stresses in Arabidopsis thaliana.","volume":"101","author":"MY Hirai","year":"2004","journal-title":"Proc Natl Acad Sci USA"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"857","DOI":"10.1016\/S0006-2952(02)01613-1","article-title":"Toxicogenomics of bromobenzene hepatotoxicity: a combined transcriptomics and proteomics approach.","volume":"65","author":"WHM Heijne","year":"2003","journal-title":"Biochem Pharmacol"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"2626","DOI":"10.1093\/bioinformatics\/bth294","article-title":"A statistical framework for genomic data fusion.","volume":"20","author":"GR Lanckriet","year":"2004","journal-title":"Bioinformatics"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"2642","DOI":"10.1021\/pr060124w","article-title":"Statistically integrated metabonomic-proteomic studies on a human prostate cancer xenograft model in mice.","volume":"5","author":"M Rantalainen","year":"2006","journal-title":"J Proteome Res"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"198","DOI":"10.1038\/nrm1857","article-title":"The model organism as a system: integrating \u2018omics\u2019 data sets.","volume":"7","author":"AR Joyce","year":"2006","journal-title":"Nat Rev Mol Cell Biol"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"1181","DOI":"10.1111\/j.1365-313X.2007.03293.x","article-title":"Data integration in plant biology: the O2PLS method for combined modeling of transcript and metabolite data.","volume":"52","author":"M Bylesjo","year":"2007","journal-title":"Plant J"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"666","DOI":"10.1038\/ng2026","article-title":"Direct quantitative trait locus mapping of mammalian metabolic phenotypes in diabetic and normoglycemic rat models.","volume":"39","author":"ME Dumas","year":"2007","journal-title":"Nat Genet"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"140","DOI":"10.1038\/msb4100180","article-title":"Network-based classification of breast cancer metastasis.","volume":"3","author":"H-Y Chuang","year":"2007","journal-title":"Mol Syst Biol"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"281","DOI":"10.1038\/10343","article-title":"Systematic determination of genetic network architecture.","volume":"22","author":"S Tavazoie","year":"1999","journal-title":"Nat Genet"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"429","DOI":"10.1016\/j.tibtech.2005.05.011","article-title":"Pathways to the analysis of microarray data.","volume":"23","author":"RK Curtis","year":"2005","journal-title":"Trends Biotechnol"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"W71","DOI":"10.1093\/nar\/gkq329","article-title":"MSEA: a web-based tool to identify biologically meaningful patterns in quantitative metabolomic data.","volume":"38","author":"J Xia","year":"2010","journal-title":"Nucl Acids Res"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"3868","DOI":"10.1161\/CIRCULATIONAHA.105.569137","article-title":"Metabolomic Identification of Novel Biomarkers of Myocardial Ischemia.","volume":"112","author":"MS Sabatine","year":"2005","journal-title":"Circulation"},{"key":"ref15","doi-asserted-by":"crossref","first-page":"236","DOI":"10.1038\/73439","article-title":"A gene expression database for the molecular pharmacology of cancer.","volume":"24","author":"U Scherf","year":"2000","journal-title":"Nat Genet"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"853","DOI":"10.1158\/1535-7163.MCT-05-0155","article-title":"Integrating data on DNA copy number with gene expression levels and drug sensitivities in the NCI-60 cell line panel.","volume":"5","author":"KJ Bussey","year":"2006","journal-title":"Mol Cancer Ther"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"820","DOI":"10.1158\/1535-7163.MCT-06-0650","article-title":"Transcript and protein expression profiles of the NCI-60 cancer cell panel: an integromic microarray study.","volume":"6","author":"UT Shankavaram","year":"2007","journal-title":"Mol Cancer Ther"},{"key":"ref18","article-title":"Molecular Target Data.","author":"S Holbeck","year":"2007"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","article-title":"Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing.","volume":"57","author":"Y Benjamini","year":"1995","journal-title":"J Roy Stat Soc B Met"},{"key":"ref20","doi-asserted-by":"crossref","first-page":"D623","DOI":"10.1093\/nar\/gkn698","article-title":"ConsensusPathDB\u2013a database for integrating human functional interaction networks.","volume":"37","author":"A Kamburov","year":"2009","journal-title":"Nucl Acids Res"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1093\/nar\/28.1.27","article-title":"KEGG: Kyoto Encyclopedia of Genes and Genomes.","volume":"28","author":"M Kanehisa","year":"2000","journal-title":"Nucl Acids Res"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"D428","DOI":"10.1093\/nar\/gki072","article-title":"Reactome: a knowledgebase of biological pathways.","volume":"33","author":"G Joshi-Tope","year":"2005","journal-title":"Nucl Acids Res"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"R2","DOI":"10.1186\/gb-2004-6-1-r2","article-title":"Computational prediction of human metabolic pathways from the complete human genome.","volume":"6","author":"P Romero","year":"2004","journal-title":"Genome Biol"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"D674","DOI":"10.1093\/nar\/gkn653","article-title":"PID: the Pathway Interaction Database.","volume":"37","author":"CF Schaefer","year":"2009","journal-title":"Nucl Acids Res"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"1514","DOI":"10.1016\/S0959-8049(98)00228-7","article-title":"Etoposide: four decades of development of a topoisomerase II inhibitor.","volume":"34","author":"KR Hande","year":"1998","journal-title":"Eur J Cancer"},{"key":"ref26","doi-asserted-by":"crossref","first-page":"185","DOI":"10.1124\/pr.56.2.6","article-title":"Anthracyclines: Molecular Advances and Pharmacologic Developments in Antitumor Activity and Cardiotoxicity.","volume":"56","author":"G Minotti","year":"2004","journal-title":"Pharmacol Rev"},{"key":"ref27","doi-asserted-by":"crossref","first-page":"703","DOI":"10.1016\/j.cell.2008.08.021","article-title":"Cancer Cell Metabolism: Warburg and Beyond.","volume":"134","author":"PP Hsu","year":"2008","journal-title":"Cell"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"300","DOI":"10.1016\/j.semcancer.2005.04.009","article-title":"Pyruvate kinase type M2 and its role in tumor growth and spreading.","volume":"15","author":"S Mazurek","year":"2005","journal-title":"Semin in Cancer Biol"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"19345","DOI":"10.1073\/pnas.0709747104","article-title":"Beyond aerobic glycolysis: Transformed cells can engage in glutamine metabolism that exceeds the requirement for protein and nucleotide synthesis.","volume":"104","author":"RJ DeBerardinis","year":"2007","journal-title":"Proc Natl Acad Sci USA"},{"key":"ref30","doi-asserted-by":"crossref","first-page":"3364","DOI":"10.1158\/0008-5472.CAN-06-3717","article-title":"2-Deoxy-d-Glucose Combined with Cisplatin Enhances Cytotoxicity via Metabolic Oxidative Stress in Human Head and Neck Cancer Cells.","volume":"67","author":"AL Simons","year":"2007","journal-title":"Cancer Res"},{"key":"ref31","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1016\/S0027-5107(01)00141-5","article-title":"Mechanisms of resistance to cisplatin.","volume":"478","author":"M Kartalou","year":"2001","journal-title":"Mutat Res-Fund Mol M"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"7265","DOI":"10.1038\/sj.onc.1206933","article-title":"Cisplatin: mode of cytotoxic action and molecular basis of resistance.","volume":"22","author":"ZH Siddik","year":"2003","journal-title":"Oncogene"},{"key":"ref33","doi-asserted-by":"crossref","first-page":"227","DOI":"10.1016\/j.drup.2004.08.002","article-title":"Molecular mechanisms of platinum resistance: still searching for the Achilles' heel.","volume":"7","author":"RP Wernyj","year":"2004","journal-title":"Drug Resist Update"},{"key":"ref34","doi-asserted-by":"crossref","first-page":"2015","DOI":"10.1158\/1535-7163.MCT-08-0929","article-title":"Base excision repair of reactive oxygen species\u201a initiated 7,8-dihydro-8-oxo-2-deoxyguanosine inhibits the cytotoxicity of platinum anticancer drugs.","volume":"8","author":"TJ Preston","year":"2009","journal-title":"Mol Cancer Ther"},{"key":"ref35","doi-asserted-by":"crossref","first-page":"257","DOI":"10.1007\/s00280-005-0041-4","article-title":"Analysis of cytotoxicities of platinum compounds.","volume":"57","author":"J Goodisman","year":"2006","journal-title":"Cancer Chemoth Pharm"},{"key":"ref36","doi-asserted-by":"crossref","first-page":"620","DOI":"10.1016\/S0026-895X(24)05645-1","article-title":"Small Interfering RNA-Mediated Suppression of dUTPase Sensitizes Cancer Cell Lines to Thymidylate Synthase Inhibition.","volume":"66","author":"SE Koehler","year":"2004","journal-title":"Mol Pharmacol"},{"key":"ref37","doi-asserted-by":"crossref","first-page":"1092","DOI":"10.1124\/mol.108.048256","article-title":"Dysregulation of Purine Nucleotide Biosynthesis Pathways Modulates Cisplatin Cytotoxicity in Saccharomyces cerevisiae.","volume":"74","author":"D Kowalski","year":"2008","journal-title":"Mol Pharmacol"},{"key":"ref38","doi-asserted-by":"crossref","first-page":"2169","DOI":"10.1016\/S0006-2952(02)01018-3","article-title":"Elevated uptake of low density lipoprotein by drug resistant human leukemic cell lines.","volume":"63","author":"L Tatidis","year":"2002","journal-title":"Biochem Pharmacol"},{"key":"ref39","doi-asserted-by":"crossref","first-page":"633","DOI":"10.1002\/nbm.1510","article-title":"Choline kinase overexpression increases invasiveness and drug resistance of human breast cancer cells.","volume":"23","author":"T Shah","year":"2010","journal-title":"NMR Biomed"},{"key":"ref40","doi-asserted-by":"crossref","first-page":"3141","DOI":"10.1158\/1535-7163.MCT-08-0642","article-title":"A genomic approach to identify molecular pathways associated with chemotherapy resistance.","volume":"7","author":"RF Riedel","year":"2008","journal-title":"Mol Cancer Ther"},{"key":"ref41","doi-asserted-by":"crossref","first-page":"425","DOI":"10.1080\/01926230590958146","article-title":"Profiles of Metabolites and Gene Expression in Rats with Chemically Induced Hepatic Necrosis.","volume":"33","author":"WHM Heijne","year":"2005","journal-title":"Toxicol Pathol"},{"key":"ref42","doi-asserted-by":"crossref","first-page":"2642","DOI":"10.1021\/pr060124w","article-title":"Statistically Integrated Metabonomic-Proteomic Studies on a Human Prostate Cancer Xenograft Model in Mice.","volume":"5","author":"M Rantalainen","year":"2006","journal-title":"J Proteome Res"},{"key":"ref43","doi-asserted-by":"crossref","first-page":"25590","DOI":"10.1074\/jbc.M502332200","article-title":"Elucidation of gene-to-gene and metabolite-to-gene networks in arabidopsis by integration of metabolomics and transcriptomics.","volume":"280","author":"MY Hirai","year":"2005","journal-title":"J Biol Chem"},{"key":"ref44","doi-asserted-by":"crossref","first-page":"e1000270","DOI":"10.1371\/journal.pcbi.1000270","article-title":"Coordinated concentration changes of transcripts and metabolites in Saccharomyces cerevisiae.","volume":"5","author":"PH Bradley","year":"2009","journal-title":"PLoS Comp Bio"},{"key":"ref45","doi-asserted-by":"crossref","first-page":"R76","DOI":"10.1186\/gb-2006-7-8-r76","article-title":"Integration of metabolite with transcript and enzyme activity profiling during diurnal cycles in Arabidopsis rosettes.","volume":"7","author":"Y Gibon","year":"2006","journal-title":"Genome Biol"},{"key":"ref46","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1038\/75556","article-title":"Gene Ontology: tool for the unification of biology.","volume":"25","author":"M Ashburner","year":"2000","journal-title":"Nat Genet"},{"key":"ref47","doi-asserted-by":"crossref","first-page":"8302","DOI":"10.1158\/0008-5472.CAN-09-0798","article-title":"Concordant Gene Expression Signatures Predict Clinical Outcomes of Cancer Patients Undergoing Systemic Therapy.","volume":"69","author":"PD Williams","year":"2009","journal-title":"Cancer Res"},{"key":"ref48","doi-asserted-by":"crossref","first-page":"1073","DOI":"10.1038\/nature04648","article-title":"Pharmaco-metabonomic phenotyping and personalized drug treatment.","volume":"440","author":"AT Clayton","year":"2006","journal-title":"Nature"},{"key":"ref49","doi-asserted-by":"crossref","first-page":"14728","DOI":"10.1073\/pnas.0904489106","article-title":"Pharmacometabonomic identification of a significant host-microbiome metabolic interaction affecting human drug metabolism.","volume":"106","author":"TA Clayton","year":"2009","journal-title":"Proc Natl Acad Sci USA"},{"key":"ref50","doi-asserted-by":"crossref","first-page":"45","DOI":"10.1038\/clpt.2009.240","article-title":"Use of Pharmaco-Metabonomics for Early Prediction of Acetaminophen\u2013Induced Hepatotoxicity in Humans.","volume":"88","author":"JH Winnike","year":"2010","journal-title":"Clin Pharmacol Ther"},{"key":"ref51","doi-asserted-by":"crossref","first-page":"6716","DOI":"10.1158\/1078-0432.CCR-09-1452","article-title":"Serum Molecular Signatures of Weight Change during Early Breast Cancer Chemotherapy.","volume":"15","author":"HC Keun","year":"2009","journal-title":"Clin Cancer Res"},{"key":"ref52","doi-asserted-by":"crossref","first-page":"910","DOI":"10.1038\/nature07762","article-title":"Metabolomic profiles delineate potential role for sarcosine in prostate cancer progression.","volume":"457","author":"A Sreekumar","year":"2009","journal-title":"Nature"},{"key":"ref53","doi-asserted-by":"crossref","first-page":"D115","DOI":"10.1093\/nar\/gkh131","article-title":"UniProt: the Universal Protein knowledgebase.","volume":"32","author":"R Apweiler","year":"2004","journal-title":"Nucl Acids Res"},{"key":"ref54","doi-asserted-by":"crossref","first-page":"D344","DOI":"10.1093\/nar\/gkm791","article-title":"ChEBI: a database and ontology for chemical entities of biological interest.","volume":"36","author":"K Degtyarenko","year":"2007","journal-title":"Nucl Acids Res"},{"key":"ref55","article-title":"VENNY. An interactive tool for comparing lists with Venn Diagrams.","author":"JC Oliveros","year":"2007"}],"container-title":["PLoS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pcbi.1001113","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,3,4]],"date-time":"2025-03-04T19:36:35Z","timestamp":1741116995000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1001113"}},"subtitle":[],"editor":[{"given":"Greg","family":"Tucker-Kellogg","sequence":"first","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2011,3,31]]},"references-count":55,"journal-issue":{"issue":"3","published-online":{"date-parts":[[2011,3,31]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.1001113","relation":{},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2011,3,31]]}}}