{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,7]],"date-time":"2026-02-07T04:16:33Z","timestamp":1770437793820,"version":"3.49.0"},"reference-count":53,"publisher":"Public Library of Science (PLoS)","issue":"2","license":[{"start":{"date-parts":[[2012,2,9]],"date-time":"2012-02-09T00:00:00Z","timestamp":1328745600000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.ploscompbiol.org"],"crossmark-restriction":false},"short-container-title":["PLoS Comput Biol"],"DOI":"10.1371\/journal.pcbi.1002347","type":"journal-article","created":{"date-parts":[[2012,2,9]],"date-time":"2012-02-09T17:08:57Z","timestamp":1328807337000},"page":"e1002347","update-policy":"https:\/\/doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":55,"title":["Using Functional Signatures to Identify Repositioned Drugs for Breast, Myelogenous Leukemia and Prostate Cancer"],"prefix":"10.1371","volume":"8","author":[{"given":"Daichi","family":"Shigemizu","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zhenjun","family":"Hu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jui-Hung","family":"Hung","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chia-Ling","family":"Huang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yajie","family":"Wang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Charles","family":"DeLisi","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2012,2,9]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"645","DOI":"10.1038\/448645a","article-title":"New uses for old drugs.","volume":"448","author":"CR Chong","year":"2007","journal-title":"Nature"},{"key":"ref2","doi-asserted-by":"crossref","first-page":"115","DOI":"10.1038\/nrd2155","article-title":"Why is cancer drug discovery so difficult?","volume":"6","author":"A Kamb","year":"2007","journal-title":"Nat Rev Drug Discov"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"273","DOI":"10.1038\/nrd3139","article-title":"Virtual screening: an endless staircase?","volume":"9","author":"G Schneider","year":"2010","journal-title":"Nat Rev Drug Discov"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"682","DOI":"10.1038\/nchembio.118","article-title":"Network pharmacology: the next paradigm in drug discovery.","volume":"4","author":"AL Hopkins","year":"2008","journal-title":"Nat Chem Biol"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"2466","DOI":"10.1093\/bioinformatics\/btp465","article-title":"Network analyses in systems pharmacology.","volume":"25","author":"SI Berger","year":"2009","journal-title":"Bioinformatics"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"54","DOI":"10.1038\/nrc2044","article-title":"The Connectivity Map: a new tool for biomedical research.","volume":"7","author":"J Lamb","year":"2007","journal-title":"Nat Rev Cancer"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"286","DOI":"10.1038\/nrd2826","article-title":"A network view of disease and compound screening.","volume":"8","author":"EE Schadt","year":"2009","journal-title":"Nat Rev Drug Discov"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"63","DOI":"10.1186\/1755-8794-4-63","article-title":"Combinations of newly confirmed Glioma-Associated loci link regions on chromosomes 1 and 9 to increased disease risk.","volume":"4","author":"TH Yang","year":"2011","journal-title":"BMC Med Genomics"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"175","DOI":"10.1038\/nature08506","article-title":"Predicting new molecular targets for known drugs.","volume":"462","author":"MJ Keiser","year":"2009","journal-title":"Nature"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"14621","DOI":"10.1073\/pnas.1000138107","article-title":"Discovery of drug mode of action and drug repositioning from transcriptional responses.","volume":"107","author":"F Iorio","year":"2010","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"507","DOI":"10.1038\/clpt.2009.103","article-title":"Systematic evaluation of drug-disease relationships to identify leads for novel drug uses.","volume":"86","author":"AP Chiang","year":"2009","journal-title":"Clin Pharmacol Ther"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"e6536","DOI":"10.1371\/journal.pone.0006536","article-title":"Human disease-drug network based on genomic expression profiles.","volume":"4","author":"G Hu","year":"2009","journal-title":"PLoS One"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"263","DOI":"10.1126\/science.1158140","article-title":"Drug target identification using side-effect similarity.","volume":"321","author":"M Campillos","year":"2008","journal-title":"Science"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"1929","DOI":"10.1126\/science.1132939","article-title":"The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease.","volume":"313","author":"J Lamb","year":"2006","journal-title":"Science"},{"key":"ref15","doi-asserted-by":"crossref","first-page":"96ra76","DOI":"10.1126\/scitranslmed.3002648","article-title":"Computational repositioning of the anticonvulsant topiramate for inflammatory bowel disease.","volume":"3","author":"JT Dudley","year":"2011","journal-title":"Sci Transl Med"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"96ra77","DOI":"10.1126\/scitranslmed.3001318","article-title":"Discovery and preclinical validation of drug indications using compendia of public gene expression data.","volume":"3","author":"M Sirota","year":"2011","journal-title":"Sci Transl Med"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"D562","DOI":"10.1093\/nar\/gki022","article-title":"NCBI GEO: mining millions of expression profiles\u2013database and tools.","volume":"33","author":"T Barrett","year":"2005","journal-title":"Nucleic Acids Res"},{"key":"ref18","doi-asserted-by":"crossref","first-page":"D480","DOI":"10.1093\/nar\/gkm882","article-title":"KEGG for linking genomes to life and the environment.","volume":"36","author":"M Kanehisa","year":"2008","journal-title":"Nucleic Acids Res"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"R91","DOI":"10.1186\/gb-2009-10-9-r91","article-title":"Genome-wide prioritization of disease genes and identification of disease-disease associations from an integrated human functional linkage network.","volume":"10","author":"B Linghu","year":"2009","journal-title":"Genome Biol"},{"key":"ref20","doi-asserted-by":"crossref","first-page":"304","DOI":"10.1016\/j.mvr.2008.12.004","article-title":"Enhanced interaction between focal adhesion and adherens junction proteins: involvement in sphingosine 1-phosphate-induced endothelial barrier enhancement.","volume":"77","author":"X Sun","year":"2009","journal-title":"Microvasc Res"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"221","DOI":"10.1158\/1541-7786.MCR-05-0261","article-title":"Inflammation, a key event in cancer development.","volume":"4","author":"H Lu","year":"2006","journal-title":"Mol Cancer Res"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"317","DOI":"10.1016\/S1535-6108(04)00083-2","article-title":"Insights into ErbB signaling from the structure of the ErbB2-pertuzumab complex.","volume":"5","author":"MC Franklin","year":"2004","journal-title":"Cancer Cell"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"280","DOI":"10.1186\/1471-2407-9-280","article-title":"The direct effect of focal adhesion kinase (FAK), dominant-negative FAK, FAK-CD and FAK siRNA on gene expression and human MCF-7 breast cancer cell tumorigenesis.","volume":"9","author":"VM Golubovskaya","year":"2009","journal-title":"BMC Cancer"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"S1","DOI":"10.1186\/bcr2572","article-title":"Present and future evolution of advanced breast cancer therapy.","volume":"12","author":"RH Alvarez","year":"2010","journal-title":"Breast Cancer Res"},{"key":"ref25","first-page":"665","article-title":"Down-regulation of thiamine transporter THTR2 gene expression in breast cancer and its association with resistance to apoptosis.","volume":"1","author":"S Liu","year":"2003","journal-title":"Mol Cancer Res"},{"key":"ref26","first-page":"985","article-title":"Elevation of serum riboflavin carrier protein in breast cancer.","volume":"8","author":"PN Rao","year":"1999","journal-title":"Cancer Epidemiol Biomarkers Prev"},{"key":"ref27","doi-asserted-by":"crossref","first-page":"2713","DOI":"10.1002\/ijc.23779","article-title":"Nucleotide excision repair polymorphisms may modify ionizing radiation-related breast cancer risk in US radiologic technologists.","volume":"123","author":"P Rajaraman","year":"2008","journal-title":"Int J Cancer"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"9420","DOI":"10.1158\/0008-5472.CAN-06-1418","article-title":"ERCC4 associated with breast cancer risk: a two-stage case-control study using high-throughput genotyping.","volume":"66","author":"RL Milne","year":"2006","journal-title":"Cancer Res"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"1376","DOI":"10.1126\/science.7973727","article-title":"Interaction of the p53-regulated protein Gadd45 with proliferating cell nuclear antigen.","volume":"266","author":"ML Smith","year":"1994","journal-title":"Science"},{"key":"ref30","doi-asserted-by":"crossref","first-page":"496","DOI":"10.1016\/j.pharmthera.2007.09.004","article-title":"Influence of cytochrome P450 polymorphisms on drug therapies: pharmacogenetic, pharmacoepigenetic and clinical aspects.","volume":"116","author":"M Ingelman-Sundberg","year":"2007","journal-title":"Pharmacol Ther"},{"key":"ref31","doi-asserted-by":"crossref","first-page":"e7147","DOI":"10.1371\/journal.pone.0007147","article-title":"Dysregulation of ribosome biogenesis and translational capacity is associated with tumor progression of human breast cancer cells.","volume":"4","author":"S Belin","year":"2009","journal-title":"PLoS One"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"322","DOI":"10.1038\/nbt0410-322","article-title":"A global map of human gene expression.","volume":"28","author":"M Lukk","year":"2010","journal-title":"Nat Biotechnol"},{"key":"ref33","doi-asserted-by":"crossref","first-page":"585","DOI":"10.1038\/sj.leu.2405058","article-title":"Targeting lipid metabolism by the lipoprotein lipase inhibitor orlistat results in apoptosis of B-cell chronic lymphocytic leukemia cells.","volume":"22","author":"CP Pallasch","year":"2008","journal-title":"Leukemia"},{"key":"ref34","doi-asserted-by":"crossref","first-page":"511","DOI":"10.1007\/BF02536082","article-title":"Structure-function relationships of alkyl-lysophospholipid analogs in selective antitumor activity.","volume":"28","author":"WR Vogler","year":"1993","journal-title":"Lipids"},{"key":"ref35","doi-asserted-by":"crossref","first-page":"469","DOI":"10.1093\/oxfordjournals.jbchem.a123604","article-title":"Suppression of ethanolamine-containing glycerophospholipid synthesis in HL-60 cells during retinoic acid-induced differentiation.","volume":"110","author":"M Naito","year":"1991","journal-title":"J Biochem"},{"key":"ref36","doi-asserted-by":"crossref","first-page":"3699","DOI":"10.1182\/blood-2005-04-1717","article-title":"Diagnosis and management of paroxysmal nocturnal hemoglobinuria.","volume":"106","author":"C Parker","year":"2005","journal-title":"Blood"},{"key":"ref37","doi-asserted-by":"crossref","first-page":"415","DOI":"10.1038\/nrc2853","article-title":"TGFbeta signalling: a complex web in cancer progression.","volume":"10","author":"H Ikushima","year":"2010","journal-title":"Nat Rev Cancer"},{"key":"ref38","doi-asserted-by":"crossref","first-page":"676","DOI":"10.1038\/nature08734","article-title":"TGF-beta-FOXO signalling maintains leukaemia-initiating cells in chronic myeloid leukaemia.","volume":"463","author":"K Naka","year":"2010","journal-title":"Nature"},{"key":"ref39","doi-asserted-by":"crossref","first-page":"245","DOI":"10.1074\/jbc.M804777200","article-title":"Role of Ras signaling in the induction of snail by transforming growth factor-beta.","volume":"284","author":"K Horiguchi","year":"2009","journal-title":"J Biol Chem"},{"key":"ref40","doi-asserted-by":"crossref","first-page":"C191","DOI":"10.1152\/ajpcell.00417.2008","article-title":"TGF-beta suppresses the upregulation of MMP-2 by vascular smooth muscle cells in response to PDGF-BB.","volume":"298","author":"GM Risinger Jr","year":"2010","journal-title":"Am J Physiol Cell Physiol"},{"key":"ref41","doi-asserted-by":"crossref","first-page":"2130","DOI":"10.1038\/sj.leu.2403144","article-title":"Apoptosis induction in peripheral leukemia cells by remission induction treatment in vivo: selective depletion and apoptosis in a CD34+ subpopulation of leukemia cells.","volume":"17","author":"K Stahnke","year":"2003","journal-title":"Leukemia"},{"key":"ref42","first-page":"377","article-title":"Cell-cycle specificity of sulforaphane-mediated apoptosis in Jurkat T-leukemia cells.","volume":"21","author":"C Fimognari","year":"2007","journal-title":"In Vivo"},{"key":"ref43","doi-asserted-by":"crossref","first-page":"15","DOI":"10.3324\/haematol.2009.016022","article-title":"T-cell receptor gene transfer for the treatment of leukemia and other tumors.","volume":"95","author":"MH Heemskerk","year":"2010","journal-title":"Haematologica"},{"key":"ref44","doi-asserted-by":"crossref","first-page":"7968","DOI":"10.4049\/jimmunol.177.11.7968","article-title":"The role of TCR engagement and activation-induced cell death in sepsis-induced T cell apoptosis.","volume":"177","author":"J Unsinger","year":"2006","journal-title":"J Immunol"},{"key":"ref45","doi-asserted-by":"crossref","first-page":"W115","DOI":"10.1093\/nar\/gkp406","article-title":"VisANT 3.5: multi-scale network visualization, analysis and inference based on the gene ontology.","volume":"37","author":"Z Hu","year":"2009","journal-title":"Nucleic Acids Res"},{"key":"ref46","doi-asserted-by":"crossref","first-page":"1687","DOI":"10.1016\/S0140-6736(05)66544-0","article-title":"Effects of chemotherapy and hormonal therapy for early breast cancer on recurrence and 15-year survival: an overview of the randomised trials.","volume":"365","year":"2005","journal-title":"Lancet"},{"key":"ref47","doi-asserted-by":"crossref","first-page":"146","DOI":"10.1006\/jsre.2001.6350","article-title":"Tamoxifen decreases fibroblast function and downregulates TGF(beta2) in dupuytren&apos;s affected palmar fascia.","volume":"103","author":"MA Kuhn","year":"2002","journal-title":"J Surg Res"},{"key":"ref48","first-page":"223","article-title":"Effects of tamoxifen on transcriptional level of transforming growth factor beta (TGF-beta) isoforms 1 and 2 in tumor tissue during primary treatment of patients with breast cancer.","volume":"23","author":"S Brandt","year":"2003","journal-title":"Anticancer Res"},{"key":"ref49","doi-asserted-by":"crossref","first-page":"191","DOI":"10.1016\/j.cca.2006.02.027","article-title":"Elevated plasma TGF-beta1 levels correlate with decreased survival of metastatic breast cancer patients.","volume":"371","author":"V Ivanovic","year":"2006","journal-title":"Clin Chim Acta"},{"key":"ref50","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.yexcr.2008.10.015","article-title":"Tamoxifen decreases extracellular TGF-beta1 secreted from breast cancer cells\u2013a post-translational regulation involving matrix metalloproteinase activity.","volume":"315","author":"UW Nilsson","year":"2009","journal-title":"Exp Cell Res"},{"key":"ref51","first-page":"21","article-title":"Actions of TGF-beta as tumor suppressor and pro-metastatic factor in human cancer.","volume":"1775","author":"K Pardali","year":"2007","journal-title":"Biochim Biophys Acta"},{"key":"ref52","doi-asserted-by":"crossref","first-page":"1464","DOI":"10.1093\/bioinformatics\/bth088","article-title":"GOstat: find statistically overrepresented Gene Ontologies within a group of genes.","volume":"20","author":"T Beissbarth","year":"2004","journal-title":"Bioinformatics"},{"key":"ref53","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"}],"container-title":["PLoS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pcbi.1002347","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,6,23]],"date-time":"2019-06-23T08:02:31Z","timestamp":1561276951000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1002347"}},"subtitle":[],"editor":[{"given":"Russ B.","family":"Altman","sequence":"first","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2012,2,9]]},"references-count":53,"journal-issue":{"issue":"2","published-online":{"date-parts":[[2012,2,9]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.1002347","relation":{},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2012,2,9]]}}}