-
1
-
-
79952284127
-
Hallmarks of Cancer: The Next Generation
-
Hanahan, D. & Weinberg, R. A. Hallmarks of Cancer: The Next Generation. Cell 144, 646-674 (2011).
-
(2011)
Cell
, vol.144
, pp. 646-674
-
-
Hanahan, D.1
Weinberg, R.A.2
-
2
-
-
54549108740
-
Comprehensive genomic characterization defnes human glioblastoma genes and core pathways
-
Chin, L. et al. Comprehensive genomic characterization defnes human glioblastoma genes and core pathways. Nature 455, 1061-1068 (2008).
-
(2008)
Nature
, vol.455
, pp. 1061-1068
-
-
Chin, L.1
-
3
-
-
77951115122
-
International network of cancer genome projects
-
Hudson, T. J. et al. International network of cancer genome projects. Nature 464, 993-998 (2010).
-
(2010)
Nature
, vol.464
, pp. 993-998
-
-
Hudson, T.J.1
-
4
-
-
33947101019
-
Patterns of somatic mutation in human cancer genomes
-
Greenman, C. et al. Patterns of somatic mutation in human cancer genomes. Nature 446, 153-158 (2007).
-
(2007)
Nature
, vol.446
, pp. 153-158
-
-
Greenman, C.1
-
5
-
-
84884419292
-
Emerging patterns of somatic mutations in cancer
-
Watson, I. R., Takahashi, K., Futreal, P. A. & Chin, L. Emerging patterns of somatic mutations in cancer. Nat. Rev. Genet. 14, 703-718 (2013).
-
(2013)
Nat. Rev. Genet.
, vol.14
, pp. 703-718
-
-
Watson, I.R.1
Takahashi, K.2
Futreal, P.A.3
Chin, L.4
-
6
-
-
84864598664
-
MuSiC: Identifying mutational signifcance in cancer genomes
-
Dees, N. D. et al. MuSiC: Identifying mutational signifcance in cancer genomes. Genome. Res. 22, 1589-1598 (2012).
-
(2012)
Genome. Res.
, vol.22
, pp. 1589-1598
-
-
Dees, N.D.1
-
7
-
-
84880507665
-
Mutational heterogeneity in cancer and the search for new cancer-associated genes
-
Lawrence, M. S. et al. Mutational heterogeneity in cancer and the search for new cancer-associated genes. Nature 499, 214-218 (2013).
-
(2013)
Nature
, vol.499
, pp. 214-218
-
-
Lawrence, M.S.1
-
8
-
-
78651439545
-
Identifying cancer driver genes in tumor genome sequencing studies
-
Youn, A. & Simon, R. Identifying cancer driver genes in tumor genome sequencing studies. Bioinformatics 27, 175-181 (2011).
-
(2011)
Bioinformatics
, vol.27
, pp. 175-181
-
-
Youn, A.1
Simon, R.2
-
10
-
-
84883467378
-
Exploiting the positional clustering of somatic mutations to identify cancer genes
-
Tamborero, D., Gonzalez-Perez, A. & Lopez-Bigas, N. OncodriveCLUST: exploiting the positional clustering of somatic mutations to identify cancer genes. Bioinformatics 29, 2238-2244 (2013).
-
(2013)
Bioinformatics
, vol.29
, pp. 2238-2244
-
-
Tamborero, D.1
Gonzalez-Perez, A.2
Oncodriveclust, L.N.3
-
11
-
-
84907372710
-
Systematic analysis of somatic mutations in phosphorylation signaling predicts novel cancer drivers
-
Reimand, J. & Bader, G. D. Systematic analysis of somatic mutations in phosphorylation signaling predicts novel cancer drivers. Mol. Syst. Biol. 10, 5633; DOI:10.15252/msb.20145633 (2014).
-
(2014)
Mol. Syst. Biol.
, vol.10
, pp. 5633
-
-
Reimand, J.1
Bader, G.D.2
-
12
-
-
76249105279
-
Genome-wide prioritization of disease genes and identifcation of disease-disease associations from an integrated human functional linkage network
-
Linghu, B., Snitkin, E. S., Hu, Z., Xia, Y. & Delisi, C. Genome-wide prioritization of disease genes and identifcation of disease-disease associations from an integrated human functional linkage network. Genome. biology 10, R91; DOI:10.1186/gb-2009-10-9-r91 (2009).
-
(2009)
Genome. Biology
, vol.10
, pp. R91
-
-
Linghu, B.1
Snitkin, E.S.2
Hu, Z.3
Xia, Y.4
Delisi, C.5
-
13
-
-
77949446630
-
Automated Network Analysis Identifes Core Pathways in Glioblastoma
-
Cerami, E., Demir, E., Schultz, N., Taylor, B. S. & Sander, C. Automated Network Analysis Identifes Core Pathways in Glioblastoma. Plos. One 5, e8918; doi:10.1371/journal.pone.0008918 (2010).
-
(2010)
Plos. One
, vol.5
, pp. e8918
-
-
Cerami, E.1
Demir, E.2
Schultz, N.3
Taylor, B.S.4
Sander, C.5
-
14
-
-
84856535081
-
Mutual exclusivity analysis identifes oncogenic network modules
-
Ciriello, G., Cerami, E., Sander, C. & Schultz, N. Mutual exclusivity analysis identifes oncogenic network modules. Genome. Res. 22, 398-406 (2012).
-
(2012)
Genome. Res.
, vol.22
, pp. 398-406
-
-
Ciriello, G.1
Cerami, E.2
Sander, C.3
Schultz, N.4
-
15
-
-
84856532705
-
De novo discovery of mutated driver pathways in cancer
-
Vandin, F., Upfal, E. & Raphael, B. J. De novo discovery of mutated driver pathways in cancer. Genome. Res. 22, 375-385 (2012).
-
(2012)
Genome. Res.
, vol.22
, pp. 375-385
-
-
Vandin, F.1
Upfal, E.2
Raphael, B.J.3
-
16
-
-
84904270668
-
Identifcation of collaborative driver pathways in breast cancer
-
Liu, Y. & Hu, Z. Identifcation of collaborative driver pathways in breast cancer. BMC genomics 15, 605 (2014).
-
(2014)
BMC Genomics
, vol.15
, pp. 605
-
-
Liu, Y.1
Hu, Z.2
-
17
-
-
84885129618
-
Comprehensive identifcation of mutational cancer driver genes across 12 tumor types
-
Tamborero, D. et al. Comprehensive identifcation of mutational cancer driver genes across 12 tumor types. Sci. Rep. 3, 2650; DOI:10.1038/srep02650 (2013).
-
(2013)
Sci. Rep.
, vol.3
, pp. 2650
-
-
Tamborero, D.1
-
18
-
-
84891757926
-
DriverDB: An exome sequencing database for cancer driver gene identifcation
-
Cheng, W. C. et al. DriverDB: an exome sequencing database for cancer driver gene identifcation. Nucleic Acids Res. 42, D1048-D1054 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. D1048-D1054
-
-
Cheng, W.C.1
-
19
-
-
33845703344
-
What is a support vector machine?
-
Noble, W. S. What is a support vector machine? Nat. Biotechnol. 24, 1565-1567 (2006).
-
(2006)
Nat. Biotechnol.
, vol.24
, pp. 1565-1567
-
-
Noble, W.S.1
-
20
-
-
77949265461
-
SKM-SNP: SNP markers detection method
-
Liu, Y., Li, M., Cheung, Y. M., Sham, P. C. & Ng, M. K. SKM-SNP: SNP markers detection method. J. Biomed. Inform. 43, 233-239 (2010).
-
(2010)
J. Biomed. Inform.
, vol.43
, pp. 233-239
-
-
Liu, Y.1
Li, M.2
Cheung, Y.M.3
Sham, P.C.4
Ng, M.K.5
-
21
-
-
77956864585
-
Shrunken methodology to genome-wide SNPs selection and construction of SNPs networks
-
Liu, Y. & Ng, M. Shrunken methodology to genome-wide SNPs selection and construction of SNPs networks. BMC systems biology 4 Suppl 2, S5; DOI:10.1186/1752-0509-4-S2-S5 (2010).
-
(2010)
BMC Systems Biology
, vol.4
, pp. S5
-
-
Liu, Y.1
Ng, M.2
-
22
-
-
84866484354
-
SNP Selection and Classifcation of Genome-Wide SNP Data Using Stratifed Sampling Random Forests
-
Wu, Q. Y., Ye, Y. M., Liu, Y. & Ng, M. K. SNP Selection and Classifcation of Genome-Wide SNP Data Using Stratifed Sampling Random Forests. Ieee T Nanobiosci. 11, 216-227 (2012).
-
(2012)
Ieee T Nanobiosci.
, vol.11
, pp. 216-227
-
-
Wu, Q.Y.1
Ye, Y.M.2
Liu, Y.3
Ng, M.K.4
-
23
-
-
0033569406
-
Molecular classifcation of cancer: Class discovery and class prediction by gene expression monitoring
-
Golub, T. R. et al. Molecular classifcation of cancer: Class discovery and class prediction by gene expression monitoring. Science 286, 531-537 (1999).
-
(1999)
Science
, vol.286
, pp. 531-537
-
-
Golub, T.R.1
-
24
-
-
33751334830
-
Machine learning methods for transcription data integration
-
Holloway, D. T., Kon, M. A. & DeLisi, C. Machine learning methods for transcription data integration. Ibm. J. Res. Dev. 50, 631-643 (2006).
-
(2006)
Ibm. J. Res. Dev.
, vol.50
, pp. 631-643
-
-
Holloway, D.T.1
Kon, M.A.2
Delisi, C.3
-
25
-
-
47949090070
-
In silico regulatory analysis for exploring human disease progression
-
Holloway, D. T., Kon, M. & DeLisi, C. In silico regulatory analysis for exploring human disease progression. Biology direct 3, 24; DOI:10.1186/1745-6150-3-24 (2008).
-
(2008)
Biology Direct
, vol.3
, pp. 24
-
-
Holloway, D.T.1
Kon, M.2
Delisi, C.3
-
26
-
-
84877028141
-
Comprehensive molecular portraits of human breast tumours
-
Koboldt, D. C. et al. Comprehensive molecular portraits of human breast tumours. Nature 490, 61-70 (2012).
-
(2012)
Nature
, vol.490
, pp. 61-70
-
-
Koboldt, D.C.1
-
27
-
-
79959838081
-
Integrated genomic analyses of ovarian carcinoma
-
Bell, D. et al. Integrated genomic analyses of ovarian carcinoma. Nature 474, 609-615 (2011).
-
(2011)
Nature
, vol.474
, pp. 609-615
-
-
Bell, D.1
-
28
-
-
84906554359
-
NCG 4.0: The network of cancer genes in the era of massive mutational screenings of cancer genomes
-
An, O. et al. NCG 4.0: the network of cancer genes in the era of massive mutational screenings of cancer genomes. Database 2014, bau015; DOI:10.1093/database/bau015 (2014).
-
(2014)
Database
, vol.2014
, pp. bau015
-
-
An, O.1
-
29
-
-
84891790401
-
The NHGRI GWAS Catalog, a curated resource of SNP-trait associations
-
Welter, D. et al. The NHGRI GWAS Catalog, a curated resource of SNP-trait associations. Nucleic Acids Res. 42, D1001-1006 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. D1001-1006
-
-
Welter, D.1
-
30
-
-
2442604715
-
The genetic association database
-
Becker, K. G., Barnes, K. C., Bright, T. J. & Wang, S. A. The genetic association database. Nature genetics 36, 431-432 (2004).
-
(2004)
Nature Genetics
, vol.36
, pp. 431-432
-
-
Becker, K.G.1
Barnes, K.C.2
Bright, T.J.3
Wang, S.A.4
-
32
-
-
58549112996
-
Bioinformatics enrichment tools: Paths toward the comprehensive functional analysis of large gene lists
-
Huang, D. W., Sherman, B. T. & Lempicki, R. A. Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res. 37, 1-13 (2009).
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. 1-13
-
-
Huang, D.W.1
Sherman, B.T.2
Lempicki, R.A.3
-
33
-
-
84883576667
-
VisANT 4.0: Integrative network platform to connect genes, drugs, diseases and therapies
-
Hu, Z. et al. VisANT 4.0: Integrative network platform to connect genes, drugs, diseases and therapies. Nucleic Acids Res. 41, W225-231 (2013).
-
(2013)
Nucleic Acids Res.
, vol.41
, pp. W225-231
-
-
Hu, Z.1
-
34
-
-
84875490185
-
Cancer Genome Landscapes
-
Vogelstein, B. et al. Cancer Genome Landscapes. Science 339, 1546-1558 (2013).
-
(2013)
Science
, vol.339
, pp. 1546-1558
-
-
Vogelstein, B.1
-
35
-
-
84878215865
-
Integrated analysis of recurrent properties of cancer genes to identify novel drivers
-
D'Antonio, M. & Ciccarelli, F. D. Integrated analysis of recurrent properties of cancer genes to identify novel drivers. Genome. biology 14, R52; DOI:10.1186/gb-2013-14-5-r52 (2013).
-
(2013)
Genome. Biology
, vol.14
, pp. R52
-
-
D'Antonio, M.1
Ciccarelli, F.D.2
-
36
-
-
84870066326
-
The PKCtheta pathway participates in the aberrant accumulation of Fra-1 protein in invasive ER-negative breast cancer cells
-
Belguise, K. et al. The PKCtheta pathway participates in the aberrant accumulation of Fra-1 protein in invasive ER-negative breast cancer cells. Oncogene 31, 4889-4897 (2012).
-
(2012)
Oncogene
, vol.31
, pp. 4889-4897
-
-
Belguise, K.1
-
37
-
-
84872585155
-
Genome and Transcriptome Sequencing in Prospective Metastatic Triple-Negative Breast Cancer Uncovers Terapeutic Vulnerabilities
-
Craig, D. W. et al. Genome and Transcriptome Sequencing in Prospective Metastatic Triple-Negative Breast Cancer Uncovers Terapeutic Vulnerabilities. Mol. Cancer Ter. 12, 104-116 (2013).
-
(2013)
Mol. Cancer Ter.
, vol.12
, pp. 104-116
-
-
Craig, D.W.1
-
38
-
-
84899670455
-
Expression of breast cancer metastasis suppressor-1, BRMS-1, in human breast cancer and the biological impact of BRMS-1 on the migration of breast cancer cells
-
Zhang, Y. et al. Expression of breast cancer metastasis suppressor-1, BRMS-1, in human breast cancer and the biological impact of BRMS-1 on the migration of breast cancer cells. Anticancer research 34, 1417-1426 (2014).
-
(2014)
Anticancer Research
, vol.34
, pp. 1417-1426
-
-
Zhang, Y.1
-
39
-
-
84886436589
-
Breast cancer metastasis suppressor-1 promoter methylation in primary breast tumors and corresponding circulating tumor cells
-
Chimonidou, M., Kallergi, G., Georgoulias, V., Welch, D. R. & Lianidou, E. S. Breast cancer metastasis suppressor-1 promoter methylation in primary breast tumors and corresponding circulating tumor cells. Molecular cancer research: MCR 11, 1248-1257 (2013).
-
(2013)
Molecular Cancer Research: MCR
, vol.11
, pp. 1248-1257
-
-
Chimonidou, M.1
Kallergi, G.2
Georgoulias, V.3
Welch, D.R.4
Lianidou, E.S.5
-
40
-
-
79954457432
-
Methylome analysis reveals Jak-STAT pathway deregulation in putative breast cancer stem cells
-
Hernandez-Vargas, H. et al. Methylome analysis reveals Jak-STAT pathway deregulation in putative breast cancer stem cells. Epigenetics-Us 6, 429-440 (2011).
-
(2011)
Epigenetics-Us
, vol.6
, pp. 429-440
-
-
Hernandez-Vargas, H.1
-
41
-
-
70449526719
-
Localized and reversible TGFbeta signalling switches breast cancer cells from cohesive to single cell motility
-
Giampieri, S. et al. Localized and reversible TGFbeta signalling switches breast cancer cells from cohesive to single cell motility. Nature cell biology 11, 1287-1296 (2009).
-
(2009)
Nature Cell Biology
, vol.11
, pp. 1287-1296
-
-
Giampieri, S.1
-
42
-
-
31544440126
-
Cell cycle control in breast cancer cells
-
Caldon, C. E., Daly, R. J., Sutherland, R. L. & Musgrove, E. A. Cell cycle control in breast cancer cells. Journal of cellular biochemistry 97, 261-274 (2006).
-
(2006)
Journal of Cellular Biochemistry
, vol.97
, pp. 261-274
-
-
Caldon, C.E.1
Daly, R.J.2
Sutherland, R.L.3
Musgrove, E.A.4
-
43
-
-
84888275423
-
Regulation of adherens junction dynamics by phosphorylation switches
-
Bertocchi, C., Vaman Rao, M. & Zaidel-Bar, R. Regulation of adherens junction dynamics by phosphorylation switches. Journal of signal transduction 2012, 125295; DOI:10.1155/2012/125295 (2012).
-
(2012)
Journal of Signal Transduction
, vol.2012
, pp. 125295
-
-
Bertocchi, C.1
Vaman Rao, M.2
Zaidel-Bar, R.3
-
44
-
-
84886414343
-
Targeting focal adhesion kinase in ER+/HER2+ breast cancer improves trastuzumab response
-
Lazaro, G. et al. Targeting focal adhesion kinase in ER+/HER2+ breast cancer improves trastuzumab response. Endocrine-related cancer 20, 691-704 (2013).
-
(2013)
Endocrine-related Cancer
, vol.20
, pp. 691-704
-
-
Lazaro, G.1
-
46
-
-
18844428908
-
Immune dysfunction and micrometastases in women with breast cancer
-
Campbell, M. J., Scott, J., Maecker, H. T., Park, J. W. & Esserman, L. J. Immune dysfunction and micrometastases in women with breast cancer. Breast Cancer Res. Tr. 91, 163-171 (2005).
-
(2005)
Breast Cancer Res. Tr.
, vol.91
, pp. 163-171
-
-
Campbell, M.J.1
Scott, J.2
Maecker, H.T.3
Park, J.W.4
Esserman, L.J.5
-
47
-
-
84869884311
-
Neurotrophins and their receptors in breast cancer
-
Hondermarck, H. Neurotrophins and their receptors in breast cancer. Cytokine Growth F R 23, 357-365 (2012).
-
(2012)
Cytokine Growth F R
, vol.23
, pp. 357-365
-
-
Hondermarck, H.1
-
48
-
-
84883487600
-
Neurotrophin-3 modulates breast cancer cells and the microenvironment to promote the growth of breast cancer brain metastasis
-
Louie, E. et al. Neurotrophin-3 modulates breast cancer cells and the microenvironment to promote the growth of breast cancer brain metastasis. Oncogene 32, 4064-4077 (2013).
-
(2013)
Oncogene
, vol.32
, pp. 4064-4077
-
-
Louie, E.1
-
49
-
-
79953792348
-
Fyn is Induced by Ras/PI3K/Akt Signaling and is Required for Enhanced Invasion/Migration
-
Yadav, V. & Denning, M. F. Fyn Is Induced by Ras/PI3K/Akt Signaling and Is Required for Enhanced Invasion/Migration. Mol. Carcinogen 50, 346-352 (2011).
-
(2011)
Mol. Carcinogen
, vol.50
, pp. 346-352
-
-
Yadav, V.1
Denning, M.F.2
-
50
-
-
0029003828
-
Protein-Kinases in Human Breast-Cancer
-
Cance, W. G. & Liu, E. T. Protein-Kinases in Human Breast-Cancer. Breast Cancer Res. Tr. 35, 105-114 (1995).
-
(1995)
Breast Cancer Res. Tr.
, vol.35
, pp. 105-114
-
-
Cance, W.G.1
Liu, E.T.2
-
51
-
-
84872191888
-
PKD2 and PKD3 promote prostate cancer cell invasion by modulating NF-kappaB-and HDAC1-mediated expression and activation of uPA
-
Zou, Z. et al. PKD2 and PKD3 promote prostate cancer cell invasion by modulating NF-kappaB-and HDAC1-mediated expression and activation of uPA. Journal of cell science 125, 4800-4811 (2012).
-
(2012)
Journal of Cell Science
, vol.125
, pp. 4800-4811
-
-
Zou, Z.1
-
52
-
-
79955882233
-
Analysis of the Mitogen-activated protein kinase kinase 4 (MAP2K4) tumor suppressor gene in ovarian cancer
-
Davis, S. J. et al. Analysis of the Mitogen-activated protein kinase kinase 4 (MAP2K4) tumor suppressor gene in ovarian cancer. Bmc Cancer 11, 173; DOI:10.1186/1471-2407-11-173 (2011).
-
(2011)
Bmc Cancer
, vol.11
, pp. 173
-
-
Davis, S.J.1
-
53
-
-
0037058703
-
Expression of mitogen-activated protein kinase phosphatase-1 (MKP-1) in primary human ovarian carcinoma
-
Denkert, C. et al. Expression of mitogen-activated protein kinase phosphatase-1 (MKP-1) in primary human ovarian carcinoma. Int. J. Cancer 102, 507-513 (2002).
-
(2002)
Int. J. Cancer
, vol.102
, pp. 507-513
-
-
Denkert, C.1
-
54
-
-
76749092270
-
The WEKA Data Mining Sofware: An Update
-
Hall, M. et al. The WEKA Data Mining Sofware: An Update. SIGKDD Explorations 11, 10-18 (2009).
-
(2009)
SIGKDD Explorations
, vol.11
, pp. 10-18
-
-
Hall, M.1
-
55
-
-
0000468432
-
Estimating Continuous Distributions in Bayesian Classifers
-
Morgan Kaufmann Publishers Inc. San Francisco, CA, USA,. Aug 18
-
John, G. H. & Langley, P. Estimating Continuous Distributions in Bayesian Classifers. In Proceedings of the Eleventh Conference on Uncertainty in Artifcial Intelligence: Montreal, Quebec. (Morgan Kaufmann Publishers Inc. San Francisco, CA, USA,. 338-345 (1995 Aug 18).
-
(1995)
Proceedings of the Eleventh Conference on Uncertainty in Artifcial Intelligence: Montreal, Quebec
, pp. 338-345
-
-
John, G.H.1
Langley, P.2
-
58
-
-
0035478854
-
Random Forests
-
Breiman, L. Random Forests. Machine Learning 45, 5-32 (2001).
-
(2001)
Machine Learning
, vol.45
, pp. 5-32
-
-
Breiman, L.1
-
59
-
-
0030211964
-
Bagging predictors
-
Breiman, L. Bagging predictors. Machine Learning 24, 123-140 (1996).
-
(1996)
Machine Learning
, vol.24
, pp. 123-140
-
-
Breiman, L.1
-
60
-
-
0002978642
-
Experiments with a new boosting algorithm
-
Morgan Kaufmann Publishers Inc. San Francisco, CA, USA. July
-
Freund, Y. & Schapire, R. E. Experiments with a new boosting algorithm. In Proceedings of the Tirteenth International Conference on Machine Learning: Bari, Italy. Morgan Kaufmann Publishers Inc. San Francisco, CA, USA. 148-156 (1996 July).
-
(1996)
Proceedings of the Tirteenth International Conference on Machine Learning: Bari, Italy
, pp. 148-156
-
-
Freund, Y.1
Schapire, R.E.2
|