-
1
-
-
33845243362
-
Cancer as an evolutionary and ecological process
-
Merlo, L. M. F., Pepper, J. W., Reid, B. J. & Maley, C. C. Cancer as an evolutionary and ecological process. Nat. Rev. Cancer 6, 924-935 (2006).
-
(2006)
Nat. Rev. Cancer
, vol.6
, pp. 924-935
-
-
Merlo, L.M.F.1
Pepper, J.W.2
Reid, B.J.3
Maley, C.C.4
-
2
-
-
0034614637
-
The hallmarks of cancer review university of California at San Francisco
-
Hanahan, D., Weinberg, R. A. & Francisco, S. The hallmarks of cancer review university of California at San Francisco. Cell 100, 57-70 (2000).
-
(2000)
Cell
, vol.100
, pp. 57-70
-
-
Hanahan, D.1
Weinberg, R.A.2
Francisco, S.3
-
3
-
-
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
-
4
-
-
84861541343
-
Mutational processes molding the genomes of 21 breast cancers
-
Nik-Zainal, S. et al. Mutational processes molding the genomes of 21 breast cancers. Cell 149, 979-993 (2012).
-
(2012)
Cell
, vol.149
, pp. 979-993
-
-
Nik-Zainal, S.1
-
5
-
-
84879890360
-
Comprehensive molecular characterization of clear cell renal cell carcinoma
-
Creighton, C. J. et al. Comprehensive molecular characterization of clear cell renal cell carcinoma. Nature 499, 43-49 (2013).
-
(2013)
Nature
, vol.499
, pp. 43-49
-
-
Creighton, C.J.1
-
6
-
-
51049084870
-
Improved identification of von Hippel-Lindau gene alterations in clear cell renal tumors
-
Nickerson, M. L. et al. Improved identification of von Hippel-Lindau gene alterations in clear cell renal tumors. Clin. Cancer Res. 14, 4726-4734 (2008).
-
(2008)
Clin. Cancer Res.
, vol.14
, pp. 4726-4734
-
-
Nickerson, M.L.1
-
7
-
-
7844234770
-
Improved detection of germline mutations in the von Hippel-Lindau disease tumor suppressor gene
-
Stolle, C. et al. Improved detection of germline mutations in the von Hippel-Lindau disease tumor suppressor gene. Hum. Mutat. 12, 417-423 (1998).
-
(1998)
Hum. Mutat.
, vol.12
, pp. 417-423
-
-
Stolle, C.1
-
8
-
-
0028800884
-
Prevalence of microscopic lesions in grossly normal renal parenchyma from patients with Von Hippel-Lindau disease, sporadic renal cell carcinoma and no renal disease: Clinical implications
-
Walther, M. M. et al. Prevalence of microscopic lesions in grossly normal renal parenchyma from patients with Von Hippel-Lindau disease, sporadic renal cell carcinoma and no renal disease: clinical implications. J. Urol. 154, 2010-2015 (1995).
-
(1995)
J. Urol.
, vol.154
, pp. 2010-2015
-
-
Walther, M.M.1
-
9
-
-
3242765340
-
The relationship between renal tumor size and metastases in patients with von Hippel-Lindau disease
-
Duffey, B. G. et al. The relationship between renal tumor size and metastases in patients with von Hippel-Lindau disease. J. Urol. 172, 63-65 (2004).
-
(2004)
J. Urol.
, vol.172
, pp. 63-65
-
-
Duffey, B.G.1
-
10
-
-
84863393080
-
Intratumor heterogeneity and branched evolution revealed by multiregion sequencing
-
Gerlinger, M. et al. Intratumor heterogeneity and branched evolution revealed by multiregion sequencing. N. Engl. J. Med. 366, 883-892 (2012).
-
(2012)
N. Engl. J. Med.
, vol.366
, pp. 883-892
-
-
Gerlinger, M.1
-
11
-
-
84895876130
-
Genomic architecture and evolution of clear cell renal cell carcinomas defined by multiregion sequencing
-
Gerlinger, M. et al. Genomic architecture and evolution of clear cell renal cell carcinomas defined by multiregion sequencing.Nat. Genet. 46, 225-233 (2014).
-
(2014)
Nat. Genet.
, vol.46
, pp. 225-233
-
-
Gerlinger, M.1
-
12
-
-
84964314111
-
Development of synchronous VHL syndrome tumors reveals contingencies and constraints to tumor evolution
-
Fisher, R. et al. Development of synchronous VHL syndrome tumors reveals contingencies and constraints to tumor evolution. Genome Biol. 15, 433 (2014).
-
(2014)
Genome Biol.
, vol.15
, pp. 433
-
-
Fisher, R.1
-
13
-
-
66349100709
-
Patterns of gene expression and copy-number alterations in von-hippel lindau disease-associated and sporadic clear cell carcinoma of the kidney
-
Beroukhim, R. et al. Patterns of gene expression and copy-number alterations in von-hippel lindau disease-associated and sporadic clear cell carcinoma of the kidney. Cancer Res. 69, 4674-4681 (2009).
-
(2009)
Cancer Res.
, vol.69
, pp. 4674-4681
-
-
Beroukhim, R.1
-
14
-
-
78049431071
-
Germline variation controls the architecture of somatic alterations in tumors
-
Dworkin, A. M. et al. Germline variation controls the architecture of somatic alterations in tumors. PLoS Genet. 6, e1001136 (2010).
-
(2010)
PLoS Genet.
, vol.6
-
-
Dworkin, A.M.1
-
15
-
-
84862976633
-
Whole-genome sequencing of liver cancers identifies etiological influences on mutation patterns and recurrent mutations in chromatin regulators
-
Fujimoto, A. et al. Whole-genome sequencing of liver cancers identifies etiological influences on mutation patterns and recurrent mutations in chromatin regulators. Nat. Genet. 44, 760-764 (2012).
-
(2012)
Nat. Genet.
, vol.44
, pp. 760-764
-
-
Fujimoto, A.1
-
16
-
-
84929991442
-
High burden and pervasive positive selection of somatic mutations in normal human skin
-
Martincorena, I. et al. High burden and pervasive positive selection of somatic mutations in normal human skin. Science 348, 880-886 (2015).
-
(2015)
Science
, vol.348
, pp. 880-886
-
-
Martincorena, I.1
-
17
-
-
84899833582
-
Whole-genome sequencing of bladder cancers reveals somatic CDKN1A mutations and clinicopathological associations with mutation burden
-
Cazier, J.-B. et al. Whole-genome sequencing of bladder cancers reveals somatic CDKN1A mutations and clinicopathological associations with mutation burden. Nat. Commun. 5, 3756 (2014).
-
(2014)
Nat. Commun.
, vol.5
, pp. 3756
-
-
Cazier, J.-B.1
-
18
-
-
84901680089
-
Whole-genome sequencing and comprehensive molecular profiling identify new driver mutations in gastric cancer
-
Wang, K. et al. Whole-genome sequencing and comprehensive molecular profiling identify new driver mutations in gastric cancer. Nat. Genet. 46, 573-582 (2014).
-
(2014)
Nat. Genet.
, vol.46
, pp. 573-582
-
-
Wang, K.1
-
19
-
-
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
-
20
-
-
84873186179
-
Deciphering signatures of mutational processes operative in human cancer
-
Alexandrov, L. B., Nik-Zainal, S., Wedge, D. C., Campbell, P. J. & Stratton, M. R. Deciphering signatures of mutational processes operative in human cancer. Cell Rep. 3, 246-259 (2013).
-
(2013)
Cell Rep.
, vol.3
, pp. 246-259
-
-
Alexandrov, L.B.1
Nik-Zainal, S.2
Wedge, D.C.3
Campbell, P.J.4
Stratton, M.R.5
-
21
-
-
84882837534
-
Signatures of mutational processes in human cancer
-
Alexandrov, L. B. et al. Signatures of mutational processes in human cancer. Nature 500, 415-421 (2013).
-
(2013)
Nature
, vol.500
, pp. 415-421
-
-
Alexandrov, L.B.1
-
22
-
-
84906303775
-
Mechanisms underlying mutational signatures in human cancers
-
Helleday, T., Eshtad, S. & Nik-Zainal, S. Mechanisms underlying mutational signatures in human cancers.Nat. Rev. Genet. 15, 585-598 (2014).
-
(2014)
Nat. Rev. Genet.
, vol.15
, pp. 585-598
-
-
Helleday, T.1
Eshtad, S.2
Nik-Zainal, S.3
-
23
-
-
84891102589
-
Mutational signatures: The patterns of somatic mutations hidden in cancer genomes
-
Alexandrov, L. B. & Stratton, M. R. Mutational signatures: the patterns of somatic mutations hidden in cancer genomes. Curr. Opin. Genet. Dev. 24, 52-60 (2014).
-
(2014)
Curr. Opin. Genet. Dev.
, vol.24
, pp. 52-60
-
-
Alexandrov, L.B.1
Stratton, M.R.2
-
24
-
-
84947743770
-
Somaticsignatures: Inferring mutational signatures from single nucleotide variants
-
Gehring, J. S., Fischer, B., Lawrence, M. & Huber, W. Somaticsignatures: inferring mutational signatures from single nucleotide variants. Bioinformatics 31, 3673-3675 (2015).
-
(2015)
Bioinformatics
, vol.31
, pp. 3673-3675
-
-
Gehring, J.S.1
Fischer, B.2
Lawrence, M.3
Huber, W.4
-
25
-
-
0032231366
-
An analysis of phenotypic variation in the familial cancer syndrome von Hippel-Lindau disease: Evidence for modifier effects
-
Webster, A. R., Richards, F. M., MacRonald, F. E., Moore, A. T. & Maher, E. R. An analysis of phenotypic variation in the familial cancer syndrome von Hippel-Lindau disease: evidence for modifier effects. Am. J. Hum. Genet. 63, 1025-1035 (1998).
-
(1998)
Am. J. Hum. Genet.
, vol.63
, pp. 1025-1035
-
-
Webster, A.R.1
Richards, F.M.2
MacRonald, F.E.3
Moore, A.T.4
Maher, E.R.5
-
26
-
-
33846913473
-
Genotype-phenotype correlations in von Hippel-Lindau disease
-
Ong, K. R. et al. Genotype-phenotype correlations in von Hippel-Lindau disease. Hum. Mutat. 28, 143-149 (2007).
-
(2007)
Hum. Mutat.
, vol.28
, pp. 143-149
-
-
Ong, K.R.1
-
27
-
-
9144268968
-
Solid renal tumor severity in von hippel lindau disease is related to germline deletion length and location
-
Maranchie, J. K. et al. Solid renal tumor severity in von hippel lindau disease is related to germline deletion length and location. Hum. Mutat. 23, 40-46 (2004).
-
(2004)
Hum. Mutat.
, vol.23
, pp. 40-46
-
-
Maranchie, J.K.1
-
28
-
-
67649884743
-
Fast and accurate short read alignment with Burrows-Wheeler transform
-
Li, H. & Durbin, R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 1754-1760
-
-
Li, H.1
Durbin, R.2
-
29
-
-
68549104404
-
The sequence alignment/map format and SAMtools
-
Li, H. et al. The sequence alignment/map format and SAMtools. Bioinformatics 25, 2078-2079 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
-
30
-
-
84968814220
-
-
Picard Tools v1.51 at http://picard.sourceforge.net/ (2011).
-
(2011)
Picard Tools V1.51
-
-
-
31
-
-
77956295988
-
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
-
McKenna, A. et al. The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. Genome Res. 20, 1297-1303 (2010).
-
(2010)
Genome Res.
, vol.20
, pp. 1297-1303
-
-
McKenna, A.1
-
32
-
-
79955483667
-
A framework for variation discovery and genotyping using next-generation DNA sequencing data
-
DePristo, M. A. et al. A framework for variation discovery and genotyping using next-generation DNA sequencing data. Nat. Genet. 43, 491-498 (2011).
-
(2011)
Nat. Genet.
, vol.43
, pp. 491-498
-
-
DePristo, M.A.1
-
33
-
-
84893406680
-
BIC-seq: A fast algorithm for detection of copy number alterations based on high-throughput sequencing data
-
Xi, R., Luquette, J., Hadjipanayis, A., Kim, T.-M. & Park, P. J. BIC-seq: a fast algorithm for detection of copy number alterations based on high-throughput sequencing data. Genome Biol. 11, O10 (2010).
-
(2010)
Genome Biol.
, vol.11
, pp. O10
-
-
Xi, R.1
Luquette, J.2
Hadjipanayis, A.3
Kim, T.-M.4
Park, P.J.5
-
34
-
-
84874025843
-
Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples
-
Cibulskis, K. et al. Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples. Nat. Biotechnol. 31, 213-219 (2013).
-
(2013)
Nat. Biotechnol.
, vol.31
, pp. 213-219
-
-
Cibulskis, K.1
-
35
-
-
0035173378
-
dbSNP: The NCBI database of genetic variation
-
Sherry, S. T. et al. dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 29, 308-311 (2001).
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 308-311
-
-
Sherry, S.T.1
-
36
-
-
84968762778
-
-
(ESP), NHLBI GO Exome Sequencing Project. Seattle, WA Variants downloaded on 11 September 2012
-
Exome Variant Server, (ESP), NHLBI GO Exome Sequencing Project. Seattle, WA at 'http://evs.gs.washington.edu/EVS/' Variants downloaded on 11 September 2012.
-
-
-
-
37
-
-
84872143942
-
Analysis of 6,515 exomes reveals the recent origin of most human protein-coding variants
-
Fu, W. et al. Analysis of 6,515 exomes reveals the recent origin of most human protein-coding variants. Nature 493, 216-220 (2013).
-
(2013)
Nature
, vol.493
, pp. 216-220
-
-
Fu, W.1
-
38
-
-
78651330430
-
COSMIC: Mining complete cancer genomes in the catalogue of somatic mutations in cancer
-
Forbes, S. A. et al. COSMIC: mining complete cancer genomes in the catalogue of somatic mutations in cancer. Nucleic Acids Res. 39, D945-D950 (2011).
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. D945-D950
-
-
Forbes, S.A.1
-
39
-
-
84860782006
-
Absolute quantification of somatic DNA alterations in human cancer
-
Carter, S. L. et al. Absolute quantification of somatic DNA alterations in human cancer. Nat. Biotechnol. 30, 413-421 (2012).
-
(2012)
Nat. Biotechnol.
, vol.30
, pp. 413-421
-
-
Carter, S.L.1
|