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Volumn 11, Issue 3, 2015, Pages

Prioritizing Therapeutics for Lung Cancer: An Integrative Meta-analysis of Cancer Gene Signatures and Chemogenomic Data

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGICAL ORGANS; CELL CULTURE; DRUG THERAPY; FORECASTING; GENES; PIPELINES;

EID: 84926385334     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/journal.pcbi.1004068     Document Type: Article
Times cited : (37)

References (38)
  • 1
    • 33846436108 scopus 로고    scopus 로고
    • Cancer statistics, trends, and multiple primary cancer analyses from the Surveillance, Epidemiology, and End Results (SEER) Program
    • Hayat MJ, Howlader N, Reichman ME, Edwards BK, (2007) Cancer statistics, trends, and multiple primary cancer analyses from the Surveillance, Epidemiology, and End Results (SEER) Program. The oncologist 12: 20–37. 17227898
    • (2007) The oncologist , vol.12 , pp. 20-37
    • Hayat, M.J.1    Howlader, N.2    Reichman, M.E.3    Edwards, B.K.4
  • 2
    • 80054867806 scopus 로고    scopus 로고
    • Integrative computational biology for cancer research
    • Fortney K, Jurisica I, (2011) Integrative computational biology for cancer research. Hum Genet 130: 465–481. doi: 10.1007/s00439-011-0983-z 21691773
    • (2011) Hum Genet , vol.130 , pp. 465-481
    • Fortney, K.1    Jurisica, I.2
  • 3
    • 33749335282 scopus 로고    scopus 로고
    • The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease
    • Lamb J, Crawford ED, Peck D, Modell JW, Blat IC, et al. (2006) The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease. Science 313: 1929–1935. 17008526
    • (2006) Science , vol.313 , pp. 1929-1935
    • Lamb, J.1    Crawford, E.D.2    Peck, D.3    Modell, J.W.4    Blat, I.C.5
  • 5
    • 65249150218 scopus 로고    scopus 로고
    • Gene expression patterns in mismatch repair-deficient colorectal cancers highlight the potential therapeutic role of inhibitors of the phosphatidylinositol 3-kinase-AKT-mammalian target of rapamycin pathway
    • Vilar E, Mukherjee B, Kuick R, Raskin L, Misek DE, et al. (2009) Gene expression patterns in mismatch repair-deficient colorectal cancers highlight the potential therapeutic role of inhibitors of the phosphatidylinositol 3-kinase-AKT-mammalian target of rapamycin pathway. Clin Cancer Res Off J Am Assoc Cancer Res 15: 2829–2839.
    • (2009) Clin Cancer Res Off J Am Assoc Cancer Res , vol.15 , pp. 2829-2839
    • Vilar, E.1    Mukherjee, B.2    Kuick, R.3    Raskin, L.4    Misek, D.E.5
  • 6
    • 77956575047 scopus 로고    scopus 로고
    • Evaluation of phenoxybenzamine in the CFA model of pain following gene expression studies and connectivity mapping
    • Chang M, Smith S, Thorpe A, Barratt MJ, Karim F, (2010) Evaluation of phenoxybenzamine in the CFA model of pain following gene expression studies and connectivity mapping. Mol Pain 6: 56. doi: 10.1186/1744-8069-6-56 20846436
    • (2010) Mol Pain , vol.6 , pp. 56
    • Chang, M.1    Smith, S.2    Thorpe, A.3    Barratt, M.J.4    Karim, F.5
  • 7
    • 79958072409 scopus 로고    scopus 로고
    • mRNA expression signatures of human skeletal muscle atrophy identify a natural compound that increases muscle mass
    • Kunkel SD, Suneja M, Ebert SM, Bongers KS, Fox DK, et al. (2011) mRNA expression signatures of human skeletal muscle atrophy identify a natural compound that increases muscle mass. Cell Metab 13: 627–638. doi: 10.1016/j.cmet.2011.03.020 21641545
    • (2011) Cell Metab , vol.13 , pp. 627-638
    • Kunkel, S.D.1    Suneja, M.2    Ebert, S.M.3    Bongers, K.S.4    Fox, D.K.5
  • 8
    • 79251628180 scopus 로고    scopus 로고
    • Expression-based in silico screening of candidate therapeutic compounds for lung adenocarcinoma
    • Wang G, Ye Y, Yang X, Liao H, Zhao C, et al. (2011) Expression-based in silico screening of candidate therapeutic compounds for lung adenocarcinoma. PloS One 6: e14573. doi: 10.1371/journal.pone.0014573 21283735
    • (2011) PloS One , vol.6 , pp. 14573
    • Wang, G.1    Ye, Y.2    Yang, X.3    Liao, H.4    Zhao, C.5
  • 9
    • 65949087244 scopus 로고    scopus 로고
    • Relationship of deregulated signaling converging onto mTOR with prognosis and classification of lung adenocarcinoma shown by two independent in silico analyses
    • Ebi H, Tomida S, Takeuchi T, Arima C, Sato T, et al. (2009) Relationship of deregulated signaling converging onto mTOR with prognosis and classification of lung adenocarcinoma shown by two independent in silico analyses. Cancer Res 69: 4027–4035. doi: 10.1158/0008-5472.CAN-08-3403 19383916
    • (2009) Cancer Res , vol.69 , pp. 4027-4035
    • Ebi, H.1    Tomida, S.2    Takeuchi, T.3    Arima, C.4    Sato, T.5
  • 10
    • 84890027846 scopus 로고    scopus 로고
    • A drug repositioning approach identifies tricyclic antidepressants as inhibitors of small cell lung cancer and other neuroendocrine tumors
    • Jahchan NS, Dudley JT, Mazur PK, Flores N, Yang D, et al. (2013) A drug repositioning approach identifies tricyclic antidepressants as inhibitors of small cell lung cancer and other neuroendocrine tumors. Cancer Discov 3: 1364–1377. doi: 10.1158/2159-8290.CD-13-0183 24078773
    • (2013) Cancer Discov , vol.3 , pp. 1364-1377
    • Jahchan, N.S.1    Dudley, J.T.2    Mazur, P.K.3    Flores, N.4    Yang, D.5
  • 11
    • 33847246805 scopus 로고    scopus 로고
    • Oncomine 3.0: genes, pathways, and networks in a collection of 18,000 cancer gene expression profiles
    • Rhodes DR, Kalyana-Sundaram S, Mahavisno V, Varambally R, Yu J, et al. (2007) Oncomine 3.0: genes, pathways, and networks in a collection of 18,000 cancer gene expression profiles. Neoplasia N Y N 9: 166–180. 17356713
    • (2007) Neoplasia N Y N , vol.9 , pp. 166-180
    • Rhodes, D.R.1    Kalyana-Sundaram, S.2    Mahavisno, V.3    Varambally, R.4    Yu, J.5
  • 12
    • 84867338003 scopus 로고    scopus 로고
    • Discovery and preclinical validation of drug indications using compendia of public gene expression data
    • Sirota M, Dudley JT, Kim J, Chiang AP, Morgan AA, et al. (2011) Discovery and preclinical validation of drug indications using compendia of public gene expression data. Sci Transl Med 3: 96ra77. doi: 10.1126/scitranslmed.3001318 21849665
    • (2011) Sci Transl Med , vol.3 , pp. 77
    • Sirota, M.1    Dudley, J.T.2    Kim, J.3    Chiang, A.P.4    Morgan, A.A.5
  • 13
    • 69449085763 scopus 로고    scopus 로고
    • sscMap: an extensible Java application for connecting small-molecule drugs using gene-expression signatures
    • Zhang S-D, Gant TW, (2009) sscMap: an extensible Java application for connecting small-molecule drugs using gene-expression signatures. BMC Bioinformatics 10: 236. doi: 10.1186/1471-2105-10-236 19646231
    • (2009) BMC Bioinformatics , vol.10 , pp. 236
    • Zhang, S.-D.1    Gant, T.W.2
  • 14
    • 79551622693 scopus 로고    scopus 로고
    • Identification of candidate small-molecule therapeutics to cancer by gene-signature perturbation in connectivity mapping
    • McArt DG, Zhang S-D, (2011) Identification of candidate small-molecule therapeutics to cancer by gene-signature perturbation in connectivity mapping. PloS One 6: e16382. doi: 10.1371/journal.pone.0016382 21305029
    • (2011) PloS One , vol.6 , pp. 16382
    • McArt, D.G.1    Zhang, S.-D.2
  • 15
    • 4344571581 scopus 로고    scopus 로고
    • Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments
    • Breitling R, Armengaud P, Amtmann A, Herzyk P, (2004) Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments. FEBS Lett 573: 83–92. 15327980
    • (2004) FEBS Lett , vol.573 , pp. 83-92
    • Breitling, R.1    Armengaud, P.2    Amtmann, A.3    Herzyk, P.4
  • 16
    • 58149349978 scopus 로고    scopus 로고
    • Gene expression profiling for molecular distinction and characterization of laser captured primary lung cancers
    • Rohrbeck A, Neukirchen J, Rosskopf M, Pardillos GG, Geddert H, et al. (2008) Gene expression profiling for molecular distinction and characterization of laser captured primary lung cancers. J Transl Med 6: 69. doi: 10.1186/1479-5876-6-69 18992152
    • (2008) J Transl Med , vol.6 , pp. 69
    • Rohrbeck, A.1    Neukirchen, J.2    Rosskopf, M.3    Pardillos, G.G.4    Geddert, H.5
  • 17
    • 0035923521 scopus 로고    scopus 로고
    • Classification of human lung carcinomas by mRNA expression profiling reveals distinct adenocarcinoma subclasses
    • Bhattacharjee A, Richards WG, Staunton J, Li C, Monti S, et al. (2001) Classification of human lung carcinomas by mRNA expression profiling reveals distinct adenocarcinoma subclasses. Proc Natl Acad Sci 98: 13790–13795. 11707567
    • (2001) Proc Natl Acad Sci , vol.98 , pp. 13790-13795
    • Bhattacharjee, A.1    Richards, W.G.2    Staunton, J.3    Li, C.4    Monti, S.5
  • 18
    • 84926318544 scopus 로고    scopus 로고
    • DTP: Developmental Therapeutics Program NCI/NIH (2012). Available: http://dtp.nci.nih.gov/.
  • 19
    • 80051699683 scopus 로고    scopus 로고
    • Combining an EGFR directed tyrosine kinase inhibitor with autophagy-inducing drugs: a beneficial strategy to combat non-small cell lung cancer
    • Gorzalczany Y, Gilad Y, Amihai D, Hammel I, Sagi-Eisenberg R, et al. (2011) Combining an EGFR directed tyrosine kinase inhibitor with autophagy-inducing drugs: a beneficial strategy to combat non-small cell lung cancer. Cancer Lett 310: 207–215. doi: 10.1016/j.canlet.2011.07.002 21807458
    • (2011) Cancer Lett , vol.310 , pp. 207-215
    • Gorzalczany, Y.1    Gilad, Y.2    Amihai, D.3    Hammel, I.4    Sagi-Eisenberg, R.5
  • 20
    • 73949140461 scopus 로고    scopus 로고
    • Carboplatin and Paclitaxel in combination with either vorinostat or placebo for first-line therapy of advanced non-small-cell lung cancer
    • Ramalingam SS, Maitland ML, Frankel P, Argiris AE, Koczywas M, et al. (2010) Carboplatin and Paclitaxel in combination with either vorinostat or placebo for first-line therapy of advanced non-small-cell lung cancer. J Clin Oncol Off J Am Soc Clin Oncol 28: 56–62.
    • (2010) J Clin Oncol Off J Am Soc Clin Oncol , vol.28 , pp. 56-62
    • Ramalingam, S.S.1    Maitland, M.L.2    Frankel, P.3    Argiris, A.E.4    Koczywas, M.5
  • 21
    • 79959872399 scopus 로고    scopus 로고
    • Epithelial to mesenchymal transition in an epidermal growth factor receptor-mutant lung cancer cell line with acquired resistance to erlotinib
    • Suda K, Tomizawa K, Fujii M, Murakami H, Osada H, et al. (2011) Epithelial to mesenchymal transition in an epidermal growth factor receptor-mutant lung cancer cell line with acquired resistance to erlotinib. J Thorac Oncol Off Publ Int Assoc Study Lung Cancer 6: 1152–1161.
    • (2011) J Thorac Oncol Off Publ Int Assoc Study Lung Cancer , vol.6 , pp. 1152-1161
    • Suda, K.1    Tomizawa, K.2    Fujii, M.3    Murakami, H.4    Osada, H.5
  • 22
    • 73449101859 scopus 로고    scopus 로고
    • Cytotoxic effects of antipsychotic drugs implicate cholesterol homeostasis as a novel chemotherapeutic target
    • Wiklund ED, Catts VS, Catts SV, Ng TF, Whitaker NJ, et al. (2010) Cytotoxic effects of antipsychotic drugs implicate cholesterol homeostasis as a novel chemotherapeutic target. Int J Cancer J Int Cancer 126: 28–40.
    • (2010) Int J Cancer J Int Cancer , vol.126 , pp. 28-40
    • Wiklund, E.D.1    Catts, V.S.2    Catts, S.V.3    Ng, T.F.4    Whitaker, N.J.5
  • 23
    • 79952115494 scopus 로고    scopus 로고
    • Similarity searching using 2D structural fingerprints
    • Willett P, (2011) Similarity searching using 2D structural fingerprints. Methods Mol Biol Clifton NJ 672: 133–158. doi: 10.1007/978-1-60761-839-3_5 20838967
    • (2011) Methods Mol Biol Clifton NJ , vol.672 , pp. 133-158
    • Willett, P.1
  • 24
    • 78651287426 scopus 로고    scopus 로고
    • DrugBank 3.0: a comprehensive resource for “omics” research on drugs
    • Knox C, Law V, Jewison T, Liu P, Ly S, et al. (2011) DrugBank 3.0: a comprehensive resource for “omics” research on drugs. Nucleic Acids Res 39: D1035–D1041. doi: 10.1093/nar/gkq1126 21059682
    • (2011) Nucleic Acids Res , vol.39 , pp. 1035-1041
    • Knox, C.1    Law, V.2    Jewison, T.3    Liu, P.4    Ly, S.5
  • 26
    • 77957044703 scopus 로고    scopus 로고
    • Discovery of drug mode of action and drug repositioning from transcriptional responses
    • Iorio F, Bosotti R, Scacheri E, Belcastro V, Mithbaokar P, et al. (2010) Discovery of drug mode of action and drug repositioning from transcriptional responses. Proc Natl Acad Sci U S A 107: 14621–14626. doi: 10.1073/pnas.1000138107 20679242
    • (2010) Proc Natl Acad Sci U S A , vol.107 , pp. 14621-14626
    • Iorio, F.1    Bosotti, R.2    Scacheri, E.3    Belcastro, V.4    Mithbaokar, P.5
  • 27
    • 80053969646 scopus 로고    scopus 로고
    • CBP501-calmodulin binding contributes to sensitizing tumor cells to cisplatin and bleomycin
    • Mine N, Yamamoto S, Saito N, Yamazaki S, Suda C, et al. (2011) CBP501-calmodulin binding contributes to sensitizing tumor cells to cisplatin and bleomycin. Mol Cancer Ther 10: 1929–1938. doi: 10.1158/1535-7163.MCT-10-1139 21831962
    • (2011) Mol Cancer Ther , vol.10 , pp. 1929-1938
    • Mine, N.1    Yamamoto, S.2    Saito, N.3    Yamazaki, S.4    Suda, C.5
  • 28
    • 4344658768 scopus 로고    scopus 로고
    • Decreased lung tumorigenesis in mice genetically deficient in cytosolic phospholipase A2
    • Meyer AM, Dwyer-Nield LD, Hurteau GJ, Keith RL, O’Leary E, et al. (2004) Decreased lung tumorigenesis in mice genetically deficient in cytosolic phospholipase A2. Carcinogenesis 25: 1517–1524. 15033900
    • (2004) Carcinogenesis , vol.25 , pp. 1517-1524
    • Meyer, A.M.1    Dwyer-Nield, L.D.2    Hurteau, G.J.3    Keith, R.L.4    O’Leary, E.5
  • 29
    • 3042694117 scopus 로고    scopus 로고
    • Large-scale meta-analysis of cancer microarray data identifies common transcriptional profiles of neoplastic transformation and progression
    • Rhodes DR, Yu J, Shanker K, Deshpande N, Varambally R, et al. (2004) Large-scale meta-analysis of cancer microarray data identifies common transcriptional profiles of neoplastic transformation and progression. Proc Natl Acad Sci U S A 101: 9309–9314. 15184677
    • (2004) Proc Natl Acad Sci U S A , vol.101 , pp. 9309-9314
    • Rhodes, D.R.1    Yu, J.2    Shanker, K.3    Deshpande, N.4    Varambally, R.5
  • 30
    • 84926367027 scopus 로고    scopus 로고
    • A to Z List of Cancer Drugs (n.d.). Natl Cancer Inst. Available: http://www.cancer.gov/cancertopics/druginfo/alphalist. Accessed 7 August 2014.
  • 31
    • 84859169877 scopus 로고    scopus 로고
    • The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity
    • Barretina J, Caponigro G, Stransky N, Venkatesan K, Margolin AA, et al. (2012) The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity. Nature 483: 603–607. doi: 10.1038/nature11003 22460905
    • (2012) Nature , vol.483 , pp. 603-607
    • Barretina, J.1    Caponigro, G.2    Stransky, N.3    Venkatesan, K.4    Margolin, A.A.5
  • 32
    • 0021118703 scopus 로고
    • Quantitative analysis of dose-effect relationships: the combined effects of multiple drugs or enzyme inhibitors
    • Chou TC, Talalay P, (1984) Quantitative analysis of dose-effect relationships: the combined effects of multiple drugs or enzyme inhibitors. Adv Enzyme Regul 22: 27–55. 6382953
    • (1984) Adv Enzyme Regul , vol.22 , pp. 27-55
    • Chou, T.C.1    Talalay, P.2
  • 33
    • 76549129820 scopus 로고    scopus 로고
    • Drug Combination Studies and Their Synergy Quantification Using the Chou-Talalay Method
    • Chou T-C, (2010) Drug Combination Studies and Their Synergy Quantification Using the Chou-Talalay Method. Cancer Res 70: 440–446. doi: 10.1158/0008-5472.CAN-09-1947 20068163
    • (2010) Cancer Res , vol.70 , pp. 440-446
    • Chou, T.-C.1
  • 34
    • 75249086155 scopus 로고    scopus 로고
    • NAViGaTOR: Network Analysis, Visualization and Graphing Toronto
    • Brown KR, Otasek D, Ali M, McGuffin MJ, Xie W, et al. (2009) NAViGaTOR: Network Analysis, Visualization and Graphing Toronto. Bioinforma Oxf Engl 25: 3327–3329.
    • (2009) Bioinforma Oxf Engl , vol.25 , pp. 3327-3329
    • Brown, K.R.1    Otasek, D.2    Ali, M.3    McGuffin, M.J.4    Xie, W.5
  • 35
    • 84926353640 scopus 로고    scopus 로고
    • The PyMOL Molecular Graphics System, Version 1.3, Schrödinger, LLC (n.d.).
  • 37
    • 84866384551 scopus 로고    scopus 로고
    • Network-based characterization of drug-regulated genes, drug targets, and toxicity
    • Kotlyar M, Fortney K, Jurisica I, (2012) Network-based characterization of drug-regulated genes, drug targets, and toxicity. Methods San Diego Calif 57: 499–507. doi: 10.1016/j.ymeth.2012.06.003 22749929
    • (2012) Methods San Diego Calif , vol.57 , pp. 499-507
    • Kotlyar, M.1    Fortney, K.2    Jurisica, I.3
  • 38
    • 84926364411 scopus 로고    scopus 로고
    • Cancer Cell Culture—Methods and Protocols (2011). 2nd ed. Available: http://www.springer.com/biomed/cancer/book/978-1-61779-079-9. Accessed 3 February 2014.


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