-
1
-
-
84942576701
-
The expanding role of primary care in cancer control
-
Rubin,G., Berendsen,A., Crawford,S.M., Dommett,R., Earle,C., Emery,J., Fahey,T., Grassi,L., Grunfeld,E., Gupta,S. et al. (2015) The expanding role of primary care in cancer control. Lancet Oncol., 16, 1231-1272.
-
(2015)
Lancet Oncol.
, vol.16
, pp. 1231-1272
-
-
Rubin, G.1
Berendsen, A.2
Crawford, S.M.3
Dommett, R.4
Earle, C.5
Emery, J.6
Fahey, T.7
Grassi, L.8
Grunfeld, E.9
Gupta, S.10
-
2
-
-
84884994218
-
The Cancer Genome Atlas Pan-Cancer analysis project
-
Weinstein,J.N., Collisson,E.A., Mills,G.B., Shaw,K.R., Ozenberger,B.A., Ellrott,K., Shmulevich,I., Sander,C. and Stuart,J.M. (2013) The Cancer Genome Atlas Pan-Cancer analysis project. Nat. Genet., 45, 1113-1120.
-
(2013)
Nat. Genet.
, vol.45
, pp. 1113-1120
-
-
Weinstein, J.N.1
Collisson, E.A.2
Mills, G.B.3
Shaw, K.R.4
Ozenberger, B.A.5
Ellrott, K.6
Shmulevich, I.7
Sander, C.8
Stuart, J.M.9
-
3
-
-
84932628860
-
Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas
-
Brat,D.J., Verhaak,R.G., Aldape,K.D., Yung,W.K., Salama,S.R., Cooper,L.A., Rheinbay,E., Miller,C.R., Vitucci,M., Morozova,O. et al. (2015) Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas. N. Engl. J. Med., 372, 2481-2498.
-
(2015)
N. Engl. J. Med.
, vol.372
, pp. 2481-2498
-
-
Brat, D.J.1
Verhaak, R.G.2
Aldape, K.D.3
Yung, W.K.4
Salama, S.R.5
Cooper, L.A.6
Rheinbay, E.7
Miller, C.R.8
Vitucci, M.9
Morozova, O.10
-
4
-
-
84908460595
-
Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin
-
Hoadley,K.A., Yau,C., Wolf,D.M., Cherniack,A.D., Tamborero,D., Ng,S., Leiserson,M.D., Niu,B., McLellan,M.D., Uzunangelov,V. et al. (2014) Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin. Cell, 158, 929-944.
-
(2014)
Cell
, vol.158
, pp. 929-944
-
-
Hoadley, K.A.1
Yau, C.2
Wolf, D.M.3
Cherniack, A.D.4
Tamborero, D.5
Ng, S.6
Leiserson, M.D.7
Niu, B.8
McLellan, M.D.9
Uzunangelov, V.10
-
5
-
-
84907270779
-
Comprehensive molecular characterization of gastric adenocarcinoma
-
Network,T.C.G.A.R. (2014) Comprehensive molecular characterization of gastric adenocarcinoma. Nature, 513, 202-209.
-
(2014)
Nature
, vol.513
, pp. 202-209
-
-
NetworkT.C.G.A.R1
-
6
-
-
84955561447
-
Molecular profiling reveals biologically discrete subsets and pathways of progression in diffuse glioma
-
In Press
-
Ceccarelli,M., Barthel,F.P., Malta,T.M., Sabedot,T.S., Salama,S.R., Murray,B.A., Morozova,O., Newton,Y., Radenbaugh,A., Pagnotta,S.M. et al. (2016) Molecular profiling reveals biologically discrete subsets and pathways of progression in diffuse glioma. Cell, 164, In Press.
-
(2016)
Cell
, vol.164
-
-
Ceccarelli, M.1
Barthel, F.P.2
Malta, T.M.3
Sabedot, T.S.4
Salama, S.R.5
Murray, B.A.6
Morozova, O.7
Newton, Y.8
Radenbaugh, A.9
Pagnotta, S.M.10
-
7
-
-
84908335908
-
Integrated genomic characterization of papillary thyroid carcinoma
-
Cancer Genome Atlas Research Network. (2014) Integrated genomic characterization of papillary thyroid carcinoma. Cell, 159, 676-690.
-
(2014)
Cell
, vol.159
, pp. 676-690
-
-
Cancer Genome Atlas Research Network1
-
8
-
-
84905029258
-
Comprehensive molecular profiling of lung adenocarcinoma
-
Cancer Genome Atlas Research Network. (2014) Comprehensive molecular profiling of lung adenocarcinoma. Nature, 511, 543-550.
-
(2014)
Nature
, vol.511
, pp. 543-550
-
-
Cancer Genome Atlas Research Network1
-
9
-
-
54549108740
-
Comprehensive genomic characterization defines human glioblastoma genes and core pathways
-
Cancer Genome Atlas Research Network. (2008) Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature, 455, 1061-1068.
-
(2008)
Nature
, vol.455
, pp. 1061-1068
-
-
Cancer Genome Atlas Research Network1
-
10
-
-
77957940722
-
The NIH Roadmap Epigenomics Mapping Consortium
-
Bernstein,B.E., Stamatoyannopoulos,J.A., Costello,J.F., Ren,B., Milosavljevic,A., Meissner,A., Kellis,M., Marra,M.A., Beaudet,A.L., Ecker,J.R. et al. (2010) The NIH Roadmap Epigenomics Mapping Consortium. Nat. Biotechnol., 28, 1045-1048.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 1045-1048
-
-
Bernstein, B.E.1
Stamatoyannopoulos, J.A.2
Costello, J.F.3
Ren, B.4
Milosavljevic, A.5
Meissner, A.6
Kellis, M.7
Marra, M.A.8
Beaudet, A.L.9
Ecker, J.R.10
-
11
-
-
79955550445
-
A user's guide to the encyclopedia of DNA elements (ENCODE)
-
Myers,R.M., Stamatoyannopoulos,J., Snyder,M., Dunham,I., Hardison,R.C., Bernstein,B.E., Gingeras,T.R., Kent,W.J., Birney,E., Wold,B. et al. (2011) A user's guide to the encyclopedia of DNA elements (ENCODE). PLoS Biol., 9, e1001046.
-
(2011)
PLoS Biol.
, vol.9
-
-
Myers, R.M.1
Stamatoyannopoulos, J.2
Snyder, M.3
Dunham, I.4
Hardison, R.C.5
Bernstein, B.E.6
Gingeras, T.R.7
Kent, W.J.8
Birney, E.9
Wold, B.10
-
12
-
-
84938923353
-
Inferring regulatory element landscapes and transcription factor networks from cancer methylomes
-
Yao,L., Shen,H., Laird,P.W., Farnham,P.J. and Berman,B.P. (2015) Inferring regulatory element landscapes and transcription factor networks from cancer methylomes. Genome Biol., 16, 105.
-
(2015)
Genome Biol.
, vol.16
, pp. 105
-
-
Yao, L.1
Shen, H.2
Laird, P.W.3
Farnham, P.J.4
Berman, B.P.5
-
13
-
-
79952610870
-
Making sense of cancer genomic data
-
Chin,L., Hahn,W.C., Getz,G. and Meyerson,M. (2011) Making sense of cancer genomic data. Genes Dev., 25, 534-555.
-
(2011)
Genes Dev.
, vol.25
, pp. 534-555
-
-
Chin, L.1
Hahn, W.C.2
Getz, G.3
Meyerson, M.4
-
14
-
-
84941092555
-
The UCSC Cancer Genomics Browser: Update 2015
-
Goldman,M., Craft,B., Swatloski,T., Cline,M., Morozova,O., Diekhans,M., Haussler,D. and Zhu,J. (2015) The UCSC Cancer Genomics Browser: update 2015. Nucleic Acids Res., 43, D812-D817.
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. D812-D817
-
-
Goldman, M.1
Craft, B.2
Swatloski, T.3
Cline, M.4
Morozova, O.5
Diekhans, M.6
Haussler, D.7
Zhu, J.8
-
15
-
-
84856549042
-
Genome-scale analysis of aberrant DNA methylation in colorectal cancer
-
Hinoue,T., Weisenberger,D.J., Lange,C.P., Shen,H., Byun,H.M., Van Den Berg,D., Malik,S., Pan,F., Noushmehr,H., van Dijk,C.M. et al. (2012) Genome-scale analysis of aberrant DNA methylation in colorectal cancer. Genome Res., 22, 271-282.
-
(2012)
Genome Res.
, vol.22
, pp. 271-282
-
-
Hinoue, T.1
Weisenberger, D.J.2
Lange, C.P.3
Shen, H.4
Byun, H.M.5
Van Den Berg, D.6
Malik, S.7
Pan, F.8
Noushmehr, H.9
Van Dijk, C.M.10
-
16
-
-
77952108366
-
Identification of a CpG island methylator phenotype that defines a distinct subgroup of glioma
-
Noushmehr,H., Weisenberger,D.J., Diefes,K., Phillips,H.S., Pujara,K., Berman,B.P., Pan,F., Pelloski,C.E., Sulman,E.P., Bhat,K.P. et al. (2010) Identification of a CpG island methylator phenotype that defines a distinct subgroup of glioma. Cancer Cell, 17, 510-522.
-
(2010)
Cancer Cell
, vol.17
, pp. 510-522
-
-
Noushmehr, H.1
Weisenberger, D.J.2
Diefes, K.3
Phillips, H.S.4
Pujara, K.5
Berman, B.P.6
Pan, F.7
Pelloski, C.E.8
Sulman, E.P.9
Bhat, K.P.10
-
17
-
-
84901761987
-
TCGA-assembler: Open-source software for retrieving and processing TCGA data
-
Zhu,Y., Qiu,P. and Ji,Y. (2014) TCGA-assembler: open-source software for retrieving and processing TCGA data. Nat. Methods, 11, 599-600.
-
(2014)
Nat. Methods
, vol.11
, pp. 599-600
-
-
Zhu, Y.1
Qiu, P.2
Ji, Y.3
-
18
-
-
84873922708
-
CanEvolve: A web portal for integrative oncogenomics
-
Samur,M.K., Yan,Z., Wang,X., Cao,Q., Munshi,N.C., Li,C. and Shah,P.K. (2013) canEvolve: a web portal for integrative oncogenomics. PLoS One, 8, e56228.
-
(2013)
PLoS One
, vol.8
-
-
Samur, M.K.1
Yan, Z.2
Wang, X.3
Cao, Q.4
Munshi, N.C.5
Li, C.6
Shah, P.K.7
-
19
-
-
84930278821
-
RTCGAToolbox: A new tool for exporting TCGA Firehose data
-
Samur,M.K. (2014) RTCGAToolbox: a new tool for exporting TCGA Firehose data. PLoS One, 9, e106397.
-
(2014)
PLoS One
, vol.9
-
-
Samur, M.K.1
-
20
-
-
84875740314
-
Integrative analysis of complex cancer genomics and clinical profiles using the cBioPortal
-
Gao,J., Aksoy,B.A., Dogrusoz,U., Dresdner,G., Gross,B., Sumer,S.O., Sun,Y., Jacobsen,A., Sinha,R., Larsson,E. et al. (2013) Integrative analysis of complex cancer genomics and clinical profiles using the cBioPortal. Sci. Signal., 6, pl1.
-
(2013)
Sci. Signal.
, vol.6
, pp. 11
-
-
Gao, J.1
Aksoy, B.A.2
Dogrusoz, U.3
Dresdner, G.4
Gross, B.5
Sumer, S.O.6
Sun, Y.7
Jacobsen, A.8
Sinha, R.9
Larsson, E.10
-
21
-
-
28744458859
-
Bioconductor: Open software development for computational biology and bioinformatics
-
Gentleman,R.C., Carey,V.J., Bates,D.M., Bolstad,B., Dettling,M., Dudoit,S., Ellis,B., Gautier,L., Ge,Y., Gentry,J. et al. (2004) Bioconductor: open software development for computational biology and bioinformatics. Genome Biol., 5, R80.
-
(2004)
Genome Biol.
, vol.5
, pp. R80
-
-
Gentleman, R.C.1
Carey, V.J.2
Bates, D.M.3
Bolstad, B.4
Dettling, M.5
Dudoit, S.6
Ellis, B.7
Gautier, L.8
Ge, Y.9
Gentry, J.10
-
22
-
-
84961289551
-
Orchestrating high-throughput genomic analysis with Bioconductor
-
Huber,W., Carey,V.J., Gentleman,R., Anders,S., Carlson,M., Carvalho,B.S., Bravo,H.C., Davis,S., Gatto,L., Girke,T. et al. (2015) Orchestrating high-throughput genomic analysis with Bioconductor. Nat. Methods, 12, 115-121.
-
(2015)
Nat. Methods
, vol.12
, pp. 115-121
-
-
Huber, W.1
Carey, V.J.2
Gentleman, R.3
Anders, S.4
Carlson, M.5
Carvalho, B.S.6
Bravo, H.C.7
Davis, S.8
Gatto, L.9
Girke, T.10
-
23
-
-
84891351715
-
Credit for code
-
(2014) Credit for code. Nat. Genetics, 46,1.
-
(2014)
Nat. Genetics
, vol.46
, pp. 1
-
-
-
24
-
-
84908327053
-
The 'dnet' approach promotes emerging research on cancer patient survival
-
Fang,H. and Gough,J. (2014) The 'dnet' approach promotes emerging research on cancer patient survival. Genome Med., 6, 64.
-
(2014)
Genome Med.
, vol.6
, pp. 64
-
-
Fang, H.1
Gough, J.2
-
25
-
-
84883368195
-
Software for computing and annotating genomic ranges
-
Lawrence,M., Huber,W., Pages,H., Aboyoun,P., Carlson,M., Gentleman,R., Morgan,M.T. and Carey,V.J. (2013) Software for computing and annotating genomic ranges. PLoS Comput. Biol., 9, e1003118.
-
(2013)
PLoS Comput. Biol.
, vol.9
-
-
Lawrence, M.1
Huber, W.2
Pages, H.3
Aboyoun, P.4
Carlson, M.5
Gentleman, R.6
Morgan, M.T.7
Carey, V.J.8
-
26
-
-
84926507971
-
Limma powers differential expression analyses for RNA-sequencing and microarray studies
-
Ritchie,M.E., Phipson,B., Wu,D., Hu,Y., Law,C.W., Shi,W. and Smyth,G.K. (2015) limma powers differential expression analyses for RNA-sequencing and microarray studies. Nucleic Acids Res., 43, e47.
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. e47
-
-
Ritchie, M.E.1
Phipson, B.2
Wu, D.3
Hu, Y.4
Law, C.W.5
Shi, W.6
Smyth, G.K.7
-
27
-
-
75249087100
-
EdgeR: A Bioconductor package for differential expression analysis of digital gene expression data
-
Robinson,M.D., McCarthy,D.J. and Smyth,G.K. (2010) edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics, 26, 139-140.
-
(2010)
Bioinformatics
, vol.26
, pp. 139-140
-
-
Robinson, M.D.1
McCarthy, D.J.2
Smyth, G.K.3
-
28
-
-
83455238345
-
GC-content normalization for RNA-Seq data
-
Risso,D., Schwartz,K., Sherlock,G. and Dudoit,S. (2011) GC-content normalization for RNA-Seq data. BMC Bioinformatics, 12, 480.
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 480
-
-
Risso, D.1
Schwartz, K.2
Sherlock, G.3
Dudoit, S.4
-
29
-
-
41149085992
-
Small-sample estimation of negative binomial dispersion, with applications to SAGE data
-
Robinson,M.D. and Smyth,G.K. (2008) Small-sample estimation of negative binomial dispersion, with applications to SAGE data. Biostatistics, 9, 321-332.
-
(2008)
Biostatistics
, vol.9
, pp. 321-332
-
-
Robinson, M.D.1
Smyth, G.K.2
-
30
-
-
0001677717
-
Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
-
Benjamini,Y. and Hochberg,Y. (1995) Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing. J. R. Stat. Soc. B (Methodological), 57, 289-300.
-
(1995)
J. R. Stat. Soc. B (Methodological)
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
31
-
-
77954182362
-
ConsensusClusterPlus: A class discovery tool with confidence assessments and item tracking
-
Wilkerson,M.D. and Hayes,D.N. (2010) ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking. Bioinformatics, 26, 1572-1573.
-
(2010)
Bioinformatics
, vol.26
, pp. 1572-1573
-
-
Wilkerson, M.D.1
Hayes, D.N.2
-
32
-
-
84877028141
-
Comprehensive molecular portraits of human breast tumours
-
Cancer Genome Atlas Research Network. (2012) Comprehensive molecular portraits of human breast tumours. Nature, 490, 61-70.
-
(2012)
Nature
, vol.490
, pp. 61-70
-
-
Cancer Genome Atlas Research Network1
-
33
-
-
84908695210
-
The somatic genomic landscape of chromophobe renal cell carcinoma
-
Davis,C.F., Ricketts,C.J., Wang,M., Yang,L., Cherniack,A.D., Shen,H., Buhay,C., Kang,H., Kim,S.C., Fahey,C.C. et al. (2014) The somatic genomic landscape of chromophobe renal cell carcinoma. Cancer Cell, 26, 319-330.
-
(2014)
Cancer Cell
, vol.26
, pp. 319-330
-
-
Davis, C.F.1
Ricketts, C.J.2
Wang, M.3
Yang, L.4
Cherniack, A.D.5
Shen, H.6
Buhay, C.7
Kang, H.8
Kim, S.C.9
Fahey, C.C.10
-
34
-
-
84863922124
-
Comprehensive molecular characterization of human colon and rectal cancer
-
Cancer Genome Atlas Research Network. (2012) Comprehensive molecular characterization of human colon and rectal cancer. Nature, 487, 330-337.
-
(2012)
Nature
, vol.487
, pp. 330-337
-
-
Cancer Genome Atlas Research Network1
-
35
-
-
84885074034
-
The somatic genomic landscape of glioblastoma
-
Brennan,C.W., Verhaak,R.G., McKenna,A., Campos,B., Noushmehr,H., Salama,S.R., Zheng,S., Chakravarty,D., Sanborn,J.Z., Berman,S.H. et al. (2013) The somatic genomic landscape of glioblastoma. Cell, 155, 462-477.
-
(2013)
Cell
, vol.155
, pp. 462-477
-
-
Brennan, C.W.1
Verhaak, R.G.2
McKenna, A.3
Campos, B.4
Noushmehr, H.5
Salama, S.R.6
Zheng, S.7
Chakravarty, D.8
Sanborn, J.Z.9
Berman, S.H.10
-
36
-
-
77249137168
-
Principles and challenges of genomewide DNA methylation analysis
-
Laird,P.W. (2010) Principles and challenges of genomewide DNA methylation analysis. Nat. Rev. Genet., 11, 191-203.
-
(2010)
Nat. Rev. Genet.
, vol.11
, pp. 191-203
-
-
Laird, P.W.1
|