-
1
-
-
0034614637
-
The hallmarks of cancer.
-
10.1016/S0092-8674(00)81683-9, 10647931
-
Hanahan D, Weinberg RA. The hallmarks of cancer. Cell 2000, 100:57-70. 10.1016/S0092-8674(00)81683-9, 10647931.
-
(2000)
Cell
, vol.100
, pp. 57-70
-
-
Hanahan, D.1
Weinberg, R.A.2
-
2
-
-
64749094310
-
The cancer genome.
-
10.1038/nature07943, 2821689, 19360079
-
Stratton MR, Campbell PJ, Futreal PA. The cancer genome. Nature 2009, 458:719-724. 10.1038/nature07943, 2821689, 19360079.
-
(2009)
Nature
, vol.458
, pp. 719-724
-
-
Stratton, M.R.1
Campbell, P.J.2
Futreal, P.A.3
-
3
-
-
72949103929
-
A census of amplified and overexpressed human cancer genes.
-
10.1038/nrc2771, 20029424
-
Santarius T, Shipley J, Brewer D, Stratton MR, Cooper CS. A census of amplified and overexpressed human cancer genes. Nat Rev Cancer 2010, 10:59-64. 10.1038/nrc2771, 20029424.
-
(2010)
Nat Rev Cancer
, vol.10
, pp. 59-64
-
-
Santarius, T.1
Shipley, J.2
Brewer, D.3
Stratton, M.R.4
Cooper, C.S.5
-
4
-
-
77249119762
-
The landscape of somatic copy-number alteration across human cancers.
-
10.1038/nature08822, 2826709, 20164920
-
Beroukhim R, Mermel C, Porter D, Wei G, Raychaudhuri S, Donovan J, Barretina J, Boehm J, Dobson J, Urashima M. The landscape of somatic copy-number alteration across human cancers. Nature 2010, 463:899-905. 10.1038/nature08822, 2826709, 20164920.
-
(2010)
Nature
, vol.463
, pp. 899-905
-
-
Beroukhim, R.1
Mermel, C.2
Porter, D.3
Wei, G.4
Raychaudhuri, S.5
Donovan, J.6
Barretina, J.7
Boehm, J.8
Dobson, J.9
Urashima, M.10
-
5
-
-
58149218240
-
High-resolution mapping of copy-number alterations with massively parallel sequencing.
-
10.1038/nmeth.1276, 2630795, 19043412
-
Chiang D, Getz G, Jaffe D, O'Kelly M, Zhao X. High-resolution mapping of copy-number alterations with massively parallel sequencing. Nat Methods 2009, 6:99-103. 10.1038/nmeth.1276, 2630795, 19043412.
-
(2009)
Nat Methods
, vol.6
, pp. 99-103
-
-
Chiang, D.1
Getz, G.2
Jaffe, D.3
O'Kelly, M.4
Zhao, X.5
-
6
-
-
77249123407
-
Signatures of mutation and selection in the cancer genome.
-
10.1038/nature08768, 20164919
-
Bignell GR, Greenman CD, Davies H, Butler AP, Edkins S, Andrews JM, Buck G, Chen L, Beare D, Latimer C, Widaa S, Hinton J, Fahey C, Fu B, Swamy S, Dalgliesh GL, Teh BT, Deloukas P, Yang F, Campbell PJ, Futreal PA, Stratton MR. Signatures of mutation and selection in the cancer genome. Nature 2010, 463:893-898. 10.1038/nature08768, 20164919.
-
(2010)
Nature
, vol.463
, pp. 893-898
-
-
Bignell, G.R.1
Greenman, C.D.2
Davies, H.3
Butler, A.P.4
Edkins, S.5
Andrews, J.M.6
Buck, G.7
Chen, L.8
Beare, D.9
Latimer, C.10
Widaa, S.11
Hinton, J.12
Fahey, C.13
Fu, B.14
Swamy, S.15
Dalgliesh, G.L.16
Teh, B.T.17
Deloukas, P.18
Yang, F.19
Campbell, P.J.20
Futreal, P.A.21
Stratton, M.R.22
more..
-
7
-
-
33947101019
-
Patterns of somatic mutation in human cancer genomes.
-
10.1038/nature05610, 2712719, 17344846
-
Greenman C, Stephens P, Smith R, Dalgliesh GL, Hunter C, Bignell G, Davies H, Teague J, Butler A, Stevens C, Edkins S, O'Meara S, Vastrik I, Schmidt EE, Avis T, Barthorpe S, Bhamra G, Buck G, Choudhury B, Clements J, Cole J, Dicks E, Forbes S, Gray K, Halliday K, Harrison R, Hills K, Hinton J, Jenkinson A, Jones D, et al. Patterns of somatic mutation in human cancer genomes. Nature 2007, 446:153-158. 10.1038/nature05610, 2712719, 17344846.
-
(2007)
Nature
, vol.446
, pp. 153-158
-
-
Greenman, C.1
Stephens, P.2
Smith, R.3
Dalgliesh, G.L.4
Hunter, C.5
Bignell, G.6
Davies, H.7
Teague, J.8
Butler, A.9
Stevens, C.10
Edkins, S.11
O'Meara, S.12
Vastrik, I.13
Schmidt, E.E.14
Avis, T.15
Barthorpe, S.16
Bhamra, G.17
Buck, G.18
Choudhury, B.19
Clements, J.20
Cole, J.21
Dicks, E.22
Forbes, S.23
Gray, K.24
Halliday, K.25
Harrison, R.26
Hills, K.27
Hinton, J.28
Jenkinson, A.29
Jones, D.30
more..
-
8
-
-
33845243362
-
Cancer as an evolutionary and ecological process.
-
10.1038/nrc2013, 17109012
-
Merlo LM, Pepper JW, Reid BJ, Maley CC. Cancer as an evolutionary and ecological process. Nat Rev Cancer 2006, 6:924-935. 10.1038/nrc2013, 17109012.
-
(2006)
Nat Rev Cancer
, vol.6
, pp. 924-935
-
-
Merlo, L.M.1
Pepper, J.W.2
Reid, B.J.3
Maley, C.C.4
-
9
-
-
54549108740
-
Comprehensive genomic characterization defines human glioblastoma genes and core pathways.
-
10.1038/nature07385, 2671642, 18772890, Network CGAR
-
Network CGAR Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature 2008, 455:1061-1068. 10.1038/nature07385, 2671642, 18772890, Network CGAR.
-
(2008)
Nature
, vol.455
, pp. 1061-1068
-
-
-
10
-
-
54549108740
-
Comprehensive genomic characterization defines human glioblastoma genes and core pathways.
-
10.1038/nature07385, 2671642, 18772890
-
McLendon R, Friedman A, Bigner D, Van Meir EG, Brat DJ, Mastrogianakis GM, Olson JJ, Mikkelsen T, Lehman N, Aldape K, Yung WK, Bogler O, Weinstein JN, VandenBerg S, Berger M, Prados M, Muzny D, Morgan M, Scherer S, Sabo A, Nazareth L, Lewis L, Hall O, Zhu Y, Ren Y, Alvi O, Yao J, Hawes A, Jhangiani S, Fowler G, et al. Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature 2008, 455:1061-1068. 10.1038/nature07385, 2671642, 18772890.
-
(2008)
Nature
, vol.455
, pp. 1061-1068
-
-
McLendon, R.1
Friedman, A.2
Bigner, D.3
Van Meir, E.G.4
Brat, D.J.5
Mastrogianakis, G.M.6
Olson, J.J.7
Mikkelsen, T.8
Lehman, N.9
Aldape, K.10
Yung, W.K.11
Bogler, O.12
Weinstein, J.N.13
VandenBerg, S.14
Berger, M.15
Prados, M.16
Muzny, D.17
Morgan, M.18
Scherer, S.19
Sabo, A.20
Nazareth, L.21
Lewis, L.22
Hall, O.23
Zhu, Y.24
Ren, Y.25
Alvi, O.26
Yao, J.27
Hawes, A.28
Jhangiani, S.29
Fowler, G.30
more..
-
11
-
-
74449093973
-
A comprehensive catalogue of somatic mutations from a human cancer genome.
-
Pleasance E, Cheetham R, Stephens P, McBride D, Humphray S, Greenman C, Varela I, Lin M, Ordóñez G, Bignell G. A comprehensive catalogue of somatic mutations from a human cancer genome. Nature 2009, 463:191-196.
-
(2009)
Nature
, vol.463
, pp. 191-196
-
-
Pleasance, E.1
Cheetham, R.2
Stephens, P.3
McBride, D.4
Humphray, S.5
Greenman, C.6
Varela, I.7
Lin, M.8
Ordóñez, G.9
Bignell, G.10
-
12
-
-
74449085934
-
A small-cell lung cancer genome with complex signatures of tobacco exposure.
-
10.1038/nature08629, 2880489, 20016488
-
Pleasance ED, Stephens PJ, O'Meara S, McBride DJ, Meynert A, Jones D, Lin ML, Beare D, Lau KW, Greenman C, Varela I, Nik-Zainal S, Davies HR, Ordonez GR, Mudie LJ, Latimer C, Edkins S, Stebbings L, Chen L, Jia M, Leroy C, Marshall J, Menzies A, Butler A, Teague JW, Mangion J, Sun YA, McLaughlin SF, Peckham HE, Tsung EF, et al. A small-cell lung cancer genome with complex signatures of tobacco exposure. Nature 2010, 463:184-190. 10.1038/nature08629, 2880489, 20016488.
-
(2010)
Nature
, vol.463
, pp. 184-190
-
-
Pleasance, E.D.1
Stephens, P.J.2
O'Meara, S.3
McBride, D.J.4
Meynert, A.5
Jones, D.6
Lin, M.L.7
Beare, D.8
Lau, K.W.9
Greenman, C.10
Varela, I.11
Nik-Zainal, S.12
Davies, H.R.13
Ordonez, G.R.14
Mudie, L.J.15
Latimer, C.16
Edkins, S.17
Stebbings, L.18
Chen, L.19
Jia, M.20
Leroy, C.21
Marshall, J.22
Menzies, A.23
Butler, A.24
Teague, J.W.25
Mangion, J.26
Sun, Y.A.27
McLaughlin, S.F.28
Peckham, H.E.29
Tsung, E.F.30
more..
-
13
-
-
72949119310
-
Complex landscapes of somatic rearrangement in human breast cancer genomes.
-
10.1038/nature08645, 20033038
-
Stephens PJ, McBride DJ, Lin ML, Varela I, Pleasance ED, Simpson JT, Stebbings LA, Leroy C, Edkins S, Mudie LJ, Greenman CD, Jia M, Latimer C, Teague JW, Lau KW, Burton J, Quail MA, Swerdlow H, Churcher C, Natrajan R, Sieuwerts AM, Martens JW, Silver DP, Langerod A, Russnes HE, Foekens JA, Reis-Filho JS, van 't Veer L, Richardson AL, Borresen-Dale AL, et al. Complex landscapes of somatic rearrangement in human breast cancer genomes. Nature 2009, 462:1005-1010. 10.1038/nature08645, 20033038.
-
(2009)
Nature
, vol.462
, pp. 1005-1010
-
-
Stephens, P.J.1
McBride, D.J.2
Lin, M.L.3
Varela, I.4
Pleasance, E.D.5
Simpson, J.T.6
Stebbings, L.A.7
Leroy, C.8
Edkins, S.9
Mudie, L.J.10
Greenman, C.D.11
Jia, M.12
Latimer, C.13
Teague, J.W.14
Lau, K.W.15
Burton, J.16
Quail, M.A.17
Swerdlow, H.18
Churcher, C.19
Natrajan, R.20
Sieuwerts, A.M.21
Martens, J.W.22
Silver, D.P.23
Langerod, A.24
Russnes, H.E.25
Foekens, J.A.26
Reis-Filho, J.S.27
van 't Veer, L.28
Richardson, A.L.29
Borresen-Dale, A.L.30
more..
-
14
-
-
33749993417
-
The consensus coding sequences of human breast and colorectal cancers.
-
10.1126/science.1133427, 16959974
-
Sjoblom T, Jones S, Wood LD, Parsons DW, Lin J, Barber TD, Mandelker D, Leary RJ, Ptak J, Silliman N, Szabo S, Buckhaults P, Farrell C, Meeh P, Markowitz SD, Willis J, Dawson D, Willson JK, Gazdar AF, Hartigan J, Wu L, Liu C, Parmigiani G, Park BH, Bachman KE, Papadopoulos N, Vogelstein B, Kinzler KW, Velculescu VE. The consensus coding sequences of human breast and colorectal cancers. Science 2006, 314:268-274. 10.1126/science.1133427, 16959974.
-
(2006)
Science
, vol.314
, pp. 268-274
-
-
Sjoblom, T.1
Jones, S.2
Wood, L.D.3
Parsons, D.W.4
Lin, J.5
Barber, T.D.6
Mandelker, D.7
Leary, R.J.8
Ptak, J.9
Silliman, N.10
Szabo, S.11
Buckhaults, P.12
Farrell, C.13
Meeh, P.14
Markowitz, S.D.15
Willis, J.16
Dawson, D.17
Willson, J.K.18
Gazdar, A.F.19
Hartigan, J.20
Wu, L.21
Liu, C.22
Parmigiani, G.23
Park, B.H.24
Bachman, K.E.25
Papadopoulos, N.26
Vogelstein, B.27
Kinzler, K.W.28
Velculescu, V.E.29
more..
-
15
-
-
38049100456
-
Assessing the significance of chromosomal aberrations in cancer: methodology and application to glioma.
-
10.1073/pnas.0710052104, 2148413, 18077431
-
Beroukhim R, Getz G, Nghiemphu L, Barretina J, Hsueh T, Linhart D, Vivanco I, Lee JC, Huang JH, Alexander S, Du J, Kau T, Thomas RK, Shah K, Soto H, Perner S, Prensner J, Debiasi RM, Demichelis F, Hatton C, Rubin MA, Garraway LA, Nelson SF, Liau L, Mischel PS, Cloughesy TF, Meyerson M, Golub TA, Lander ES, Mellinghoff IK, et al. Assessing the significance of chromosomal aberrations in cancer: methodology and application to glioma. Proc Natl Acad Sci USA 2007, 104:20007-20012. 10.1073/pnas.0710052104, 2148413, 18077431.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 20007-20012
-
-
Beroukhim, R.1
Getz, G.2
Nghiemphu, L.3
Barretina, J.4
Hsueh, T.5
Linhart, D.6
Vivanco, I.7
Lee, J.C.8
Huang, J.H.9
Alexander, S.10
Du, J.11
Kau, T.12
Thomas, R.K.13
Shah, K.14
Soto, H.15
Perner, S.16
Prensner, J.17
Debiasi, R.M.18
Demichelis, F.19
Hatton, C.20
Rubin, M.A.21
Garraway, L.A.22
Nelson, S.F.23
Liau, L.24
Mischel, P.S.25
Cloughesy, T.F.26
Meyerson, M.27
Golub, T.A.28
Lander, E.S.29
Mellinghoff, I.K.30
more..
-
16
-
-
36248980204
-
Characterizing the cancer genome in lung adenocarcinoma.
-
10.1038/nature06358, 2538683, 17982442
-
Weir BA, Woo MS, Getz G, Perner S, Ding L, Beroukhim R, Lin WM, Province MA, Kraja A, Johnson LA, Shah K, Sato M, Thomas RK, Barletta JA, Borecki IB, Broderick S, Chang AC, Chiang DY, Chirieac LR, Cho J, Fujii Y, Gazdar AF, Giordano T, Greulich H, Hanna M, Johnson BE, Kris MG, Lash A, Lin L, Lindeman N, et al. Characterizing the cancer genome in lung adenocarcinoma. Nature 2007, 450:893-898. 10.1038/nature06358, 2538683, 17982442.
-
(2007)
Nature
, vol.450
, pp. 893-898
-
-
Weir, B.A.1
Woo, M.S.2
Getz, G.3
Perner, S.4
Ding, L.5
Beroukhim, R.6
Lin, W.M.7
Province, M.A.8
Kraja, A.9
Johnson, L.A.10
Shah, K.11
Sato, M.12
Thomas, R.K.13
Barletta, J.A.14
Borecki, I.B.15
Broderick, S.16
Chang, A.C.17
Chiang, D.Y.18
Chirieac, L.R.19
Cho, J.20
Fujii, Y.21
Gazdar, A.F.22
Giordano, T.23
Greulich, H.24
Hanna, M.25
Johnson, B.E.26
Kris, M.G.27
Lash, A.28
Lin, L.29
Lindeman, N.30
more..
-
17
-
-
38849166096
-
Modeling genomic diversity and tumor dependency in malignant melanoma.
-
10.1158/0008-5472.CAN-07-2615, 18245465
-
Lin WM, Baker AC, Beroukhim R, Winckler W, Feng W, Marmion JM, Laine E, Greulich H, Tseng H, Gates C, Hodi FS, Dranoff G, Sellers WR, Thomas RK, Meyerson M, Golub TR, Dummer R, Herlyn M, Getz G, Garraway LA. Modeling genomic diversity and tumor dependency in malignant melanoma. Cancer Res 2008, 68:664-673. 10.1158/0008-5472.CAN-07-2615, 18245465.
-
(2008)
Cancer Res
, vol.68
, pp. 664-673
-
-
Lin, W.M.1
Baker, A.C.2
Beroukhim, R.3
Winckler, W.4
Feng, W.5
Marmion, J.M.6
Laine, E.7
Greulich, H.8
Tseng, H.9
Gates, C.10
Hodi, F.S.11
Dranoff, G.12
Sellers, W.R.13
Thomas, R.K.14
Meyerson, M.15
Golub, T.R.16
Dummer, R.17
Herlyn, M.18
Getz, G.19
Garraway, L.A.20
more..
-
18
-
-
52949111487
-
CDK8 is a colorectal cancer oncogene that regulates beta-catenin activity.
-
10.1038/nature07179, 2587138, 18794900
-
Firestein R, Bass AJ, Kim SY, Dunn IF, Silver SJ, Guney I, Freed E, Ligon AH, Vena N, Ogino S, Chheda MG, Tamayo P, Finn S, Shrestha Y, Boehm JS, Jain S, Bojarski E, Mermel C, Barretina J, Chan JA, Baselga J, Tabernero J, Root DE, Fuchs CS, Loda M, Shivdasani RA, Meyerson M, Hahn WC. CDK8 is a colorectal cancer oncogene that regulates beta-catenin activity. Nature 2008, 455:547-551. 10.1038/nature07179, 2587138, 18794900.
-
(2008)
Nature
, vol.455
, pp. 547-551
-
-
Firestein, R.1
Bass, A.J.2
Kim, S.Y.3
Dunn, I.F.4
Silver, S.J.5
Guney, I.6
Freed, E.7
Ligon, A.H.8
Vena, N.9
Ogino, S.10
Chheda, M.G.11
Tamayo, P.12
Finn, S.13
Shrestha, Y.14
Boehm, J.S.15
Jain, S.16
Bojarski, E.17
Mermel, C.18
Barretina, J.19
Chan, J.A.20
Baselga, J.21
Tabernero, J.22
Root, D.E.23
Fuchs, C.S.24
Loda, M.25
Shivdasani, R.A.26
Meyerson, M.27
Hahn, W.C.28
more..
-
19
-
-
53049086329
-
Focal gains of VEGFA and molecular classification of hepatocellular carcinoma.
-
10.1158/0008-5472.CAN-08-0742, 2587454, 18701503
-
Chiang DY, Villanueva A, Hoshida Y, Peix J, Newell P, Minguez B, LeBlanc AC, Donovan DJ, Thung SN, Sole M, Tovar V, Alsinet C, Ramos AH, Barretina J, Roayaie S, Schwartz M, Waxman S, Bruix J, Mazzaferro V, Ligon AH, Najfeld V, Friedman SL, Sellers WR, Meyerson M, Llovet JM. Focal gains of VEGFA and molecular classification of hepatocellular carcinoma. Cancer Res 2008, 68:6779-6788. 10.1158/0008-5472.CAN-08-0742, 2587454, 18701503.
-
(2008)
Cancer Res
, vol.68
, pp. 6779-6788
-
-
Chiang, D.Y.1
Villanueva, A.2
Hoshida, Y.3
Peix, J.4
Newell, P.5
Minguez, B.6
LeBlanc, A.C.7
Donovan, D.J.8
Thung, S.N.9
Sole, M.10
Tovar, V.11
Alsinet, C.12
Ramos, A.H.13
Barretina, J.14
Roayaie, S.15
Schwartz, M.16
Waxman, S.17
Bruix, J.18
Mazzaferro, V.19
Ligon, A.H.20
Najfeld, V.21
Friedman, S.L.22
Sellers, W.R.23
Meyerson, M.24
Llovet, J.M.25
more..
-
20
-
-
63149190291
-
Integrated genome-wide DNA copy number and expression analysis identifies distinct mechanisms of primary chemoresistance in ovarian carcinomas.
-
10.1158/1078-0432.CCR-08-1564, 2670486, 19193619
-
Etemadmoghadam D, deFazio A, Beroukhim R, Mermel C, George J, Getz G, Tothill R, Okamoto A, Raeder MB, Harnett P, Lade S, Akslen LA, Tinker AV, Locandro B, Alsop K, Chiew YE, Traficante N, Fereday S, Johnson D, Fox S, Sellers W, Urashima M, Salvesen HB, Meyerson M, Bowtell D, Bowtell D, Chenevix-Trench G, Green A, Webb P, deFazio A, et al. Integrated genome-wide DNA copy number and expression analysis identifies distinct mechanisms of primary chemoresistance in ovarian carcinomas. Clin Cancer Res 2009, 15:1417-1427. 10.1158/1078-0432.CCR-08-1564, 2670486, 19193619.
-
(2009)
Clin Cancer Res
, vol.15
, pp. 1417-1427
-
-
Etemadmoghadam, D.1
deFazio, A.2
Beroukhim, R.3
Mermel, C.4
George, J.5
Getz, G.6
Tothill, R.7
Okamoto, A.8
Raeder, M.B.9
Harnett, P.10
Lade, S.11
Akslen, L.A.12
Tinker, A.V.13
Locandro, B.14
Alsop, K.15
Chiew, Y.E.16
Traficante, N.17
Fereday, S.18
Johnson, D.19
Fox, S.20
Sellers, W.21
Urashima, M.22
Salvesen, H.B.23
Meyerson, M.24
Bowtell, D.25
Bowtell, D.26
Chenevix-Trench, G.27
Green, A.28
Webb, P.29
deFazio, A.30
more..
-
21
-
-
63449115501
-
Multiple recurrent genetic events converge on control of histone lysine methylation in medulloblastoma.
-
10.1038/ng.336, 19270706
-
Northcott PA, Nakahara Y, Wu X, Feuk L, Ellison DW, Croul S, Mack S, Kongkham PN, Peacock J, Dubuc A, Ra Y-S, Zilberberg K, McLeod J, Scherer SW, Sunil Rao J, Eberhart CG, Grajkowska W, Gillespie Y, Lach B, Grundy R, Pollack IF, Hamilton RL, Van Meter T, Carlotti CG, Boop F, Bigner D, Gilbertson RJ, Rutka JT, Taylor MD. Multiple recurrent genetic events converge on control of histone lysine methylation in medulloblastoma. Nat Genet 2009, 41:465-472. 10.1038/ng.336, 19270706.
-
(2009)
Nat Genet
, vol.41
, pp. 465-472
-
-
Northcott, P.A.1
Nakahara, Y.2
Wu, X.3
Feuk, L.4
Ellison, D.W.5
Croul, S.6
Mack, S.7
Kongkham, P.N.8
Peacock, J.9
Dubuc, A.10
Ra, Y.-S.11
Zilberberg, K.12
McLeod, J.13
Scherer, S.W.14
Sunil Rao, J.15
Eberhart, C.G.16
Grajkowska, W.17
Gillespie, Y.18
Lach, B.19
Grundy, R.20
Pollack, I.F.21
Hamilton, R.L.22
Van Meter, T.23
Carlotti, C.G.24
Boop, F.25
Bigner, D.26
Gilbertson, R.J.27
Rutka, J.T.28
Taylor, M.D.29
more..
-
22
-
-
70350641014
-
SOX2 is an amplified lineage-survival oncogene in lung and esophageal squamous cell carcinomas.
-
10.1038/ng.465, 2783775, 19801978
-
Bass AJ, Watanabe H, Mermel CH, Yu S, Perner S, Verhaak RG, Kim SY, Wardwell L, Tamayo P, Gat-Viks I, Ramos AH, Woo MS, Weir BA, Getz G, Beroukhim R, O'Kelly M, Dutt A, Rozenblatt-Rosen O, Dziunycz P, Komisarof J, Chirieac LR, Lafargue CJ, Scheble V, Wilbertz T, Ma C, Rao S, Nakagawa H, Stairs DB, Lin L, Giordano TJ, et al. SOX2 is an amplified lineage-survival oncogene in lung and esophageal squamous cell carcinomas. Nat Genet 2009, 41:1238-1242. 10.1038/ng.465, 2783775, 19801978.
-
(2009)
Nat Genet
, vol.41
, pp. 1238-1242
-
-
Bass, A.J.1
Watanabe, H.2
Mermel, C.H.3
Yu, S.4
Perner, S.5
Verhaak, R.G.6
Kim, S.Y.7
Wardwell, L.8
Tamayo, P.9
Gat-Viks, I.10
Ramos, A.H.11
Woo, M.S.12
Weir, B.A.13
Getz, G.14
Beroukhim, R.15
O'Kelly, M.16
Dutt, A.17
Rozenblatt-Rosen, O.18
Dziunycz, P.19
Komisarof, J.20
Chirieac, L.R.21
Lafargue, C.J.22
Scheble, V.23
Wilbertz, T.24
Ma, C.25
Rao, S.26
Nakagawa, H.27
Stairs, D.B.28
Lin, L.29
Giordano, T.J.30
more..
-
23
-
-
33748276243
-
STAC: A method for testing the significance of DNA copy number aberrations across multiple array-CGH experiments.
-
10.1101/gr.5076506, 1557772, 16899652
-
Diskin SJ, Eck T, Greshock J, Mosse YP, Naylor T, Stoeckert CJ, Weber BL, Maris JM, Grant GR. STAC: A method for testing the significance of DNA copy number aberrations across multiple array-CGH experiments. Genome Res 2006, 16:1149-1158. 10.1101/gr.5076506, 1557772, 16899652.
-
(2006)
Genome Res
, vol.16
, pp. 1149-1158
-
-
Diskin, S.J.1
Eck, T.2
Greshock, J.3
Mosse, Y.P.4
Naylor, T.5
Stoeckert, C.J.6
Weber, B.L.7
Maris, J.M.8
Grant, G.R.9
-
24
-
-
34548452229
-
Assessing the significance of conserved genomic aberrations using high resolution genomic microarrays.
-
10.1371/journal.pgen.0030143, 1950957, 17722985
-
Guttman M, Mies C, Dudycz-Sulicz K, Diskin SJ, Baldwin DA, Stoeckert CJ, Grant GR. Assessing the significance of conserved genomic aberrations using high resolution genomic microarrays. PLoS Genet 2007, 3:e143. 10.1371/journal.pgen.0030143, 1950957, 17722985.
-
(2007)
PLoS Genet
, vol.3
-
-
Guttman, M.1
Mies, C.2
Dudycz-Sulicz, K.3
Diskin, S.J.4
Baldwin, D.A.5
Stoeckert, C.J.6
Grant, G.R.7
-
25
-
-
58149112821
-
Functional copy-number alterations in cancer.
-
10.1371/journal.pone.0003179, 2527508, 18784837
-
Taylor BS, Barretina J, Socci ND, Decarolis P, Ladanyi M, Meyerson M, Singer S, Sander C, Gibson G. Functional copy-number alterations in cancer. PLoS ONE 2008, 3:e3179. 10.1371/journal.pone.0003179, 2527508, 18784837.
-
(2008)
PLoS ONE
, vol.3
-
-
Taylor, B.S.1
Barretina, J.2
Socci, N.D.3
Decarolis, P.4
Ladanyi, M.5
Meyerson, M.6
Singer, S.7
Sander, C.8
Gibson, G.9
-
26
-
-
62549158266
-
Computational methods for identification of recurrent copy number alteration patterns by array CGH.
-
10.1159/000184726, 19287173
-
Shah SP. Computational methods for identification of recurrent copy number alteration patterns by array CGH. Cytogenet Genome Res 2008, 123:343-351. 10.1159/000184726, 19287173.
-
(2008)
Cytogenet Genome Res
, vol.123
, pp. 343-351
-
-
Shah, S.P.1
-
27
-
-
4344680935
-
Human chromosomes with shorter telomeres and large heterochromatin regions have a higher frequency of acquired somatic cell aneuploidy.
-
10.1016/j.mad.2004.06.006, 15336914
-
Leach NT, Rehder C, Jensen K, Holt S, Jackson-Cook C. Human chromosomes with shorter telomeres and large heterochromatin regions have a higher frequency of acquired somatic cell aneuploidy. Mech Ageing Dev 2004, 125:563-573. 10.1016/j.mad.2004.06.006, 15336914.
-
(2004)
Mech Ageing Dev
, vol.125
, pp. 563-573
-
-
Leach, N.T.1
Rehder, C.2
Jensen, K.3
Holt, S.4
Jackson-Cook, C.5
-
28
-
-
17744413236
-
Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application.
-
55329, 11532216
-
Li C, Hung Wong W. Model-based analysis of oligonucleotide arrays: model validation, design issues and standard error application. Genome Biol 2001, 2:RESEARCH0032. 55329, 11532216.
-
(2001)
Genome Biol
, vol.2
-
-
Li, C.1
Hung Wong, W.2
-
29
-
-
0035793042
-
Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection.
-
10.1073/pnas.011404098, 14539, 11134512
-
Li C, Wong WH. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc Natl Acad Sci USA 2001, 98:31-36. 10.1073/pnas.011404098, 14539, 11134512.
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 31-36
-
-
Li, C.1
Wong, W.H.2
-
30
-
-
16544386180
-
Experimental design and low-level analysis of microarray data.
-
Bolstad BM, Collin F, Simpson KM, Irizarry RA, Speed TP. Experimental design and low-level analysis of microarray data. Int Rev Neurobiol 2004, 60:25-58.
-
(2004)
Int Rev Neurobiol
, vol.60
, pp. 25-58
-
-
Bolstad, B.M.1
Collin, F.2
Simpson, K.M.3
Irizarry, R.A.4
Speed, T.P.5
-
31
-
-
37349084293
-
Assessment of algorithms for high throughput detection of genomic copy number variation in oligonucleotide microarray data.
-
10.1186/1471-2105-8-368, 2148068, 17910767
-
Baross A, Delaney AD, Li HI, Nayar T, Flibotte S, Qian H, Chan SY, Asano J, Ally A, Cao M, Birch P, Brown-John M, Fernandes N, Go A, Kennedy G, Langlois S, Eydoux P, Friedman JM, Marra MA. Assessment of algorithms for high throughput detection of genomic copy number variation in oligonucleotide microarray data. BMC Bioinformatics 2007, 8:368. 10.1186/1471-2105-8-368, 2148068, 17910767.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 368
-
-
Baross, A.1
Delaney, A.D.2
Li, H.I.3
Nayar, T.4
Flibotte, S.5
Qian, H.6
Chan, S.Y.7
Asano, J.8
Ally, A.9
Cao, M.10
Birch, P.11
Brown-John, M.12
Fernandes, N.13
Go, A.14
Kennedy, G.15
Langlois, S.16
Eydoux, P.17
Friedman, J.M.18
Marra, M.A.19
-
32
-
-
12344259648
-
Analysis of array CGH data: from signal ratio to gain and loss of DNA regions.
-
10.1093/bioinformatics/bth418, 15381628
-
Hupé P, Stransky N, Thiery J-P, Radvanyi F, Barillot E. Analysis of array CGH data: from signal ratio to gain and loss of DNA regions. Bioinformatics 2004, 20:3413-3422. 10.1093/bioinformatics/bth418, 15381628.
-
(2004)
Bioinformatics
, vol.20
, pp. 3413-3422
-
-
Hupé, P.1
Stransky, N.2
Thiery, J.-P.3
Radvanyi, F.4
Barillot, E.5
-
33
-
-
3543105225
-
Circular binary segmentation for the analysis of array-based DNA copy number data.
-
10.1093/biostatistics/kxh008, 15475419
-
Olshen AB, Venkatraman ES, Lucito R, Wigler M. Circular binary segmentation for the analysis of array-based DNA copy number data. Biostatistics 2004, 5:557-572. 10.1093/biostatistics/kxh008, 15475419.
-
(2004)
Biostatistics
, vol.5
, pp. 557-572
-
-
Olshen, A.B.1
Venkatraman, E.S.2
Lucito, R.3
Wigler, M.4
-
34
-
-
34147104969
-
A faster circular binary segmentation algorithm for the analysis of array CGH data.
-
10.1093/bioinformatics/btl646, 17234643
-
Venkatraman ES, Olshen AB. A faster circular binary segmentation algorithm for the analysis of array CGH data. Bioinformatics 2007, 23:657-663. 10.1093/bioinformatics/btl646, 17234643.
-
(2007)
Bioinformatics
, vol.23
, pp. 657-663
-
-
Venkatraman, E.S.1
Olshen, A.B.2
-
35
-
-
64549088918
-
Ultrasome: efficient aberration caller for copy number studies of ultra-high resolution.
-
10.1093/bioinformatics/btp091, 19228802
-
Nilsson B, Johansson M, Al-Shahrour F, Carpenter AE, Ebert BL. Ultrasome: efficient aberration caller for copy number studies of ultra-high resolution. Bioinformatics 2009, 25:1078-1079. 10.1093/bioinformatics/btp091, 19228802.
-
(2009)
Bioinformatics
, vol.25
, pp. 1078-1079
-
-
Nilsson, B.1
Johansson, M.2
Al-Shahrour, F.3
Carpenter, A.E.4
Ebert, B.L.5
-
36
-
-
0001677717
-
Controlling the false discovery rate: a practical and powerful approach to multiple testing.
-
Benjamini Y, Hochberg Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc B (Methodological) 1995, 57:289-300.
-
(1995)
J R Stat Soc B (Methodological)
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
37
-
-
77953330045
-
JISTIC: identification of significant targets in cancer.
-
10.1186/1471-2105-11-189, 2873534, 20398270
-
Sanchez-Garcia F, Akavia UD, Mozes E, Pe'er D. JISTIC: identification of significant targets in cancer. BMC Bioinformatics 2010, 11:189. 10.1186/1471-2105-11-189, 2873534, 20398270.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 189
-
-
Sanchez-Garcia, F.1
Akavia, U.D.2
Mozes, E.3
Pe'er, D.4
-
38
-
-
79960184753
-
GISTIC 2 Manuscript and Software Download Page
-
GISTIC 2 Manuscript and Software Download Page. , http://www.broadinstitute.org/cancer/pub/GISTIC2
-
-
-
-
39
-
-
84880567417
-
GenePattern
-
GenePattern. , http://www.broadinstitute.org/cancer/software/genepattern/
-
-
-
-
40
-
-
78650959663
-
Massive genomic rearrangement acquired in a single catastrophic event during cancer development.
-
10.1016/j.cell.2010.11.055, 3065307, 21215367
-
Stephens PJ, Greenman CD, Fu B, Yang F, Bignell GR, Mudie LJ, Pleasance ED, Lau KW, Beare D, Stebbings LA, McLaren S, Lin ML, McBride DJ, Varela I, Nik-Zainal S, Leroy C, Jia M, Menzies A, Butler AP, Teague JW, Quail MA, Burton J, Swerdlow H, Carter NP, Morsberger LA, Iacobuzio-Donahue C, Follows GA, Green AR, Flanagan AM, Stratton MR, et al. Massive genomic rearrangement acquired in a single catastrophic event during cancer development. Cell 2011, 144:27-40. 10.1016/j.cell.2010.11.055, 3065307, 21215367.
-
(2011)
Cell
, vol.144
, pp. 27-40
-
-
Stephens, P.J.1
Greenman, C.D.2
Fu, B.3
Yang, F.4
Bignell, G.R.5
Mudie, L.J.6
Pleasance, E.D.7
Lau, K.W.8
Beare, D.9
Stebbings, L.A.10
McLaren, S.11
Lin, M.L.12
McBride, D.J.13
Varela, I.14
Nik-Zainal, S.15
Leroy, C.16
Jia, M.17
Menzies, A.18
Butler, A.P.19
Teague, J.W.20
Quail, M.A.21
Burton, J.22
Swerdlow, H.23
Carter, N.P.24
Morsberger, L.A.25
Iacobuzio-Donahue, C.26
Follows, G.A.27
Green, A.R.28
Flanagan, A.M.29
Stratton, M.R.30
more..
-
41
-
-
70349330124
-
Genomic aberrations in 80 cases of primary glioblastoma multiforme: Pathogenetic heterogeneity and putative cytogenetic pathways.
-
10.1002/gcc.20690, 19603525
-
Dahlback HS, Brandal P, Meling TR, Gorunova L, Scheie D, Heim S. Genomic aberrations in 80 cases of primary glioblastoma multiforme: Pathogenetic heterogeneity and putative cytogenetic pathways. Genes Chromosomes Cancer 2009, 48:908-924. 10.1002/gcc.20690, 19603525.
-
(2009)
Genes Chromosomes Cancer
, vol.48
, pp. 908-924
-
-
Dahlback, H.S.1
Brandal, P.2
Meling, T.R.3
Gorunova, L.4
Scheie, D.5
Heim, S.6
-
42
-
-
72849144434
-
Sequencing technologies - the next generation.
-
Metzker M. Sequencing technologies - the next generation. Nat Rev Genet 2009, 11:31-46.
-
(2009)
Nat Rev Genet
, vol.11
, pp. 31-46
-
-
Metzker, M.1
-
43
-
-
79960170987
-
The Cancer Genome Atlas Data Portal, GBM Publication
-
The Cancer Genome Atlas Data Portal, GBM Publication. , http://tcga-data.nci.nih.gov/docs/publications/gbm_2008/
-
-
-
-
44
-
-
52949141845
-
Integrated detection and population-genetic analysis of SNPs and copy number variation.
-
10.1038/ng.238, 18776908
-
McCarroll SA, Kuruvilla FG, Korn JM, Cawley S, Nemesh J, Wysoker A, Shapero MH, de Bakker PI, Maller JB, Kirby A, Elliott AL, Parkin M, Hubbell E, Webster T, Mei R, Veitch J, Collins PJ, Handsaker R, Lincoln S, Nizzari M, Blume J, Jones KW, Rava R, Daly MJ, Gabriel SB, Altshuler D. Integrated detection and population-genetic analysis of SNPs and copy number variation. Nat Genet 2008, 40:1166-1174. 10.1038/ng.238, 18776908.
-
(2008)
Nat Genet
, vol.40
, pp. 1166-1174
-
-
McCarroll, S.A.1
Kuruvilla, F.G.2
Korn, J.M.3
Cawley, S.4
Nemesh, J.5
Wysoker, A.6
Shapero, M.H.7
de Bakker, P.I.8
Maller, J.B.9
Kirby, A.10
Elliott, A.L.11
Parkin, M.12
Hubbell, E.13
Webster, T.14
Mei, R.15
Veitch, J.16
Collins, P.J.17
Handsaker, R.18
Lincoln, S.19
Nizzari, M.20
Blume, J.21
Jones, K.W.22
Rava, R.23
Daly, M.J.24
Gabriel, S.B.25
Altshuler, D.26
more..
-
45
-
-
0000120766
-
Estimating the dimension of a model.
-
Schwarz G. Estimating the dimension of a model. Ann Statist 1978, 6:461-464.
-
(1978)
Ann Statist
, vol.6
, pp. 461-464
-
-
Schwarz, G.1
-
46
-
-
67649522162
-
Boveri revisited: chromosomal instability, aneuploidy and tumorigenesis.
-
Holland AJ, Cleveland DW. Boveri revisited: chromosomal instability, aneuploidy and tumorigenesis. Nat Rev Mol Cell Biol 2009, 10:478-487.
-
(2009)
Nat Rev Mol Cell Biol
, vol.10
, pp. 478-487
-
-
Holland, A.J.1
Cleveland, D.W.2
|