-
1
-
-
36248962105
-
The genomic landscapes of human breast and colorectal cancers
-
Wood, L.D.; Parsons, D.W.; Jones, S.; Lin, J.; Sjoblom, T.; Leary, R.J.; Shen, D.; Boca, S.M.; Barber, T.; Ptak, J, et al. The genomic landscapes of human breast and colorectal cancers. Science 2007, 318, 1108-1113.
-
(2007)
Science
, vol.318
, pp. 1108-1113
-
-
Wood, L.D.1
Parsons, D.W.2
Jones, S.3
Lin, J.4
Sjoblom, T.5
Leary, R.J.6
Shen, D.7
Boca, S.M.8
Barber, T.9
Ptak, J.10
-
2
-
-
78650966622
-
Somatic mutation profiles of MSI and MSS colorectal cancer identified by whole exome next generation sequencing and bioinformatics analysis
-
Timmermann, B.; Kerick, M.; Roehr, C.; Fischer, A.; Isau, M.; Boerno, S.T.; Wunderlich, A.; Barmeyer, C.; Seemann, P.; Koenig, J, et al. Somatic mutation profiles of MSI and MSS colorectal cancer identified by whole exome next generation sequencing and bioinformatics analysis. PLoS One 2010, 5, e15661.
-
(2010)
PLoS One
, vol.5
, pp. 15661
-
-
Timmermann, B.1
Kerick, M.2
Roehr, C.3
Fischer, A.4
Isau, M.5
Boerno, S.T.6
Wunderlich, A.7
Barmeyer, C.8
Seemann, P.9
Koenig, J.10
-
3
-
-
55549101623
-
DNA sequencing of a cytogenetically normal acute myeloid leukaemia genome
-
Ley, T.J.; Mardis, E.R.; Ding, L.; Fulton, B.; McLellan, M.D.; Chen, K.; Dooling, D.; Dunford-Shore, B.H.; McGrath, S.; Hickenbotham, M, et al. DNA sequencing of a cytogenetically normal acute myeloid leukaemia genome. Nature 2008, 456, 66-72.
-
(2008)
Nature
, vol.456
, pp. 66-72
-
-
Ley, T.J.1
Mardis, E.R.2
Ding, L.3
Fulton, B.4
McLellan, M.D.5
Chen, K.6
Dooling, D.7
Dunford-Shore, B.H.8
McGrath, S.9
Hickenbotham, M.10
-
4
-
-
70249111091
-
Targeted capture and massively parallel sequencing of 12 human exomes
-
Ng, S.B.; Turner, E.H.; Robertson, P.D.; Flygare, S.D.; Bigham, A.W.; Lee, C.; Shaffer, T.; Wong, M.; Bhattacharjee, A.; Eichler, E.E, et al. Targeted capture and massively parallel sequencing of 12 human exomes. Nature 2009, 461, 272-276.
-
(2009)
Nature
, vol.461
, pp. 272-276
-
-
Ng, S.B.1
Turner, E.H.2
Robertson, P.D.3
Flygare, S.D.4
Bigham, A.W.5
Lee, C.6
Shaffer, T.7
Wong, M.8
Bhattacharjee, A.9
Eichler, E.E.10
-
5
-
-
77955660663
-
Diverse somatic mutation patterns and pathway alterations in human cancers
-
Kan, Z.; Jaiswal, B.S.; Stinson, J.; Janakiraman, V.; Bhatt, D.; Stern, H.M.; Yue, P.; Haverty, P.M.; Bourgon, R.; Zheng, J, et al. Diverse somatic mutation patterns and pathway alterations in human cancers. Nature 2010, 466, 869-873.
-
(2010)
Nature
, vol.466
, pp. 869-873
-
-
Kan, Z.1
Jaiswal, B.S.2
Stinson, J.3
Janakiraman, V.4
Bhatt, D.5
Stern, H.M.6
Yue, P.7
Haverty, P.M.8
Bourgon, R.9
Zheng, J.10
-
6
-
-
72849144434
-
Sequencing technologies The next generation
-
Metzker, M.L. Sequencing technologies The next generation. Nat. Rev. Genet. 2010, 11, 31-46.
-
(2010)
Nat. Rev. Genet
, vol.11
, pp. 31-46
-
-
Metzker, M.L.1
-
7
-
-
79951497419
-
The genomic complexity of primary human prostate cancer
-
Berger, M.F.; Lawrence, M.S.; Demichelis, F.; Drier, Y.; Cibulskis, K.; Sivachenko, A.Y.; Sboner, A.; Esgueva, R.; Pflueger, D.; Sougnez, C, et al. The genomic complexity of primary human prostate cancer. Nature 2011, 470, 214-220.
-
(2011)
Nature
, vol.470
, pp. 214-220
-
-
Berger, M.F.1
Lawrence, M.S.2
Demichelis, F.3
Drier, Y.4
Cibulskis, K.5
Sivachenko, A.Y.6
Sboner, A.7
Esgueva, R.8
Pflueger, D.9
Sougnez, C.10
-
8
-
-
80054751998
-
Exome sequencing identifies a spectrum of mutation frequencies in advanced and lethal prostate cancers
-
Kumar, A.; White, T.A.; MacKenzie, A.P.; Clegg, N.; Lee, C.; Dumpit, R.F.; Coleman, I.; Ng, S.B.; Salipante, S.J.; Rieder, M.J, et al. Exome sequencing identifies a spectrum of mutation frequencies in advanced and lethal prostate cancers. Proc. Natl. Acad. Sci. USA 2011, 108, 17087-17092.
-
(2011)
Proc. Natl. Acad. Sci. USA
, vol.108
, pp. 17087-17092
-
-
Kumar, A.1
White, T.A.2
Mackenzie, A.P.3
Clegg, N.4
Lee, C.5
Dumpit, R.F.6
Coleman, I.7
Ng, S.B.8
Salipante, S.J.9
Rieder, M.J.10
-
9
-
-
78650791604
-
Analysis of next-generation genomic data in cancer: Accomplishments and challenges
-
Ding, L.; Wendl, M.C.; Koboldt, D.C.; Mardis, E.R. Analysis of next-generation genomic data in cancer: Accomplishments and challenges. Hum. Mol. Genet. 2010, 19, R188-R196.
-
(2010)
Hum. Mol. Genet
, vol.19
-
-
Ding, L.1
Wendl, M.C.2
Koboldt, D.C.3
Mardis, E.R.4
-
10
-
-
58849106752
-
Cryopreservation of prostate cancer tissue during routine processing of fresh unfixed prostatectomy specimen: Demonstration and validation of a new technique
-
Schafer, S.C.; Pfnur, M.; Yerly, S.; Fandel, T.M.; Jichlinski, P.; Lehr, H.A. Cryopreservation of prostate cancer tissue during routine processing of fresh unfixed prostatectomy specimen: Demonstration and validation of a new technique. Prostate 2009, 69, 191-197.
-
(2009)
Prostate
, vol.69
, pp. 191-197
-
-
Schafer, S.C.1
Pfnur, M.2
Yerly, S.3
Fandel, T.M.4
Jichlinski, P.5
Lehr, H.A.6
-
11
-
-
17944390807
-
Optimisation of DNA and RNA extraction from archival formalin-fixed tissue
-
Coombs, N.J.; Gough, A.C.; Primrose, J.N. Optimisation of DNA and RNA extraction from archival formalin-fixed tissue. Nucleic Acids Res. 1999, 27, e12.
-
(1999)
Nucleic Acids Res
, vol.27
-
-
Coombs, N.J.1
Gough, A.C.2
Primrose, J.N.3
-
12
-
-
38449091221
-
A comparative study of the quality of DNA obtained from fresh frozen and formalin-fixed decalcified paraffin-embedded bone marrow trephine biopsy specimens using two different methods
-
Talaulikar, D.; Gray, J.X.; Shadbolt, B.; McNiven, M.; Dahlstrom, J.E. A comparative study of the quality of DNA obtained from fresh frozen and formalin-fixed decalcified paraffin-embedded bone marrow trephine biopsy specimens using two different methods. J. Clin. Pathol. 2008, 61, 119-123.
-
(2008)
J. Clin. Pathol
, vol.61
, pp. 119-123
-
-
Talaulikar, D.1
Gray, J.X.2
Shadbolt, B.3
McNiven, M.4
Dahlstrom, J.E.5
-
13
-
-
79961004638
-
The power of NGS technologies to delineate the genome organization in cancer: From mutations to structural variations and epigenetic alterations
-
Schweiger, M.R.; Kerick, M.; Timmermann, B.; Isau, M. The power of NGS technologies to delineate the genome organization in cancer: From mutations to structural variations and epigenetic alterations. Cancer Metastasis Rev. 2011, 30, 199-210.
-
(2011)
Cancer Metastasis Rev
, vol.30
, pp. 199-210
-
-
Schweiger, M.R.1
Kerick, M.2
Timmermann, B.3
Isau, M.4
-
14
-
-
80053173227
-
Targeted high throughput sequencing in clinical cancer settings: Formaldehyde fixed-paraffin embedded (FFPE) tumor tissues, input amount and tumor heterogeneity
-
Kerick, M.; Isau, M.; Timmermann, B.; Sultmann, H.; Herwig, R.; Krobitsch, S.; Schaefer, G.; Verdorfer, I.; Bartsch, G.; Klocker, H, et al. Targeted high throughput sequencing in clinical cancer settings: Formaldehyde fixed-paraffin embedded (FFPE) tumor tissues, input amount and tumor heterogeneity. BMC Med. Genomics 2011, 4, 68.
-
(2011)
BMC Med. Genomics
, vol.4
, pp. 68
-
-
Kerick, M.1
Isau, M.2
Timmermann, B.3
Sultmann, H.4
Herwig, R.5
Krobitsch, S.6
Schaefer, G.7
Verdorfer, I.8
Bartsch, G.9
Klocker, H.10
-
15
-
-
77956838065
-
Advances in understanding cancer genomes through second-generation sequencing
-
Meyerson, M.; Gabriel, S.; Getz, G. Advances in understanding cancer genomes through second-generation sequencing. Nat. Rev. Genet. 2010, 11, 685-696.
-
(2010)
Nat. Rev. Genet
, vol.11
, pp. 685-696
-
-
Meyerson, M.1
Gabriel, S.2
Getz, G.3
-
16
-
-
65849458558
-
Genome-wide massively parallel sequencing of formaldehyde fixed-paraffin embedded (FFPE) tumor tissues for copy-number- and mutation-analysis
-
Schweiger, M.R.; Kerick, M.; Timmermann, B.; Albrecht, M.W.; Borodina, T.; Parkhomchuk, D.; Zatloukal, K.; Lehrach, H. Genome-wide massively parallel sequencing of formaldehyde fixed-paraffin embedded (FFPE) tumor tissues for copy-number- and mutation-analysis. PLoS One 2009, 4, e5548.
-
(2009)
PLoS One
, vol.4
, pp. 5548
-
-
Schweiger, M.R.1
Kerick, M.2
Timmermann, B.3
Albrecht, M.W.4
Borodina, T.5
Parkhomchuk, D.6
Zatloukal, K.7
Lehrach, H.8
-
17
-
-
70450177746
-
BFAST: An alignment tool for large scale genome resequencing
-
Homer, N.; Merriman, B.; Nelson, S.F. BFAST: An alignment tool for large scale genome resequencing. PLoS One 2009, 4, e7767.
-
(2009)
PLoS One
, vol.4
, pp. 7767
-
-
Homer, N.1
Merriman, B.2
Nelson, S.F.3
-
18
-
-
68549104404
-
The sequence alignment/map format and SAMtools
-
Li, H.; Handsaker, B.; Wysoker, A.; Fennell, T.; Ruan, J.; Homer, N.; Marth, G.; Abecasis, G.; Durbin, R. The sequence alignment/map format and SAMtools. Bioinformatics2009,25, 2078-2079.
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
Handsaker, B.2
Wysoker, A.3
Fennell, T.4
Ruan, J.5
Homer, N.6
Marth, G.7
Abecasis, G.8
Durbin, R.9
-
19
-
-
77956295988
-
The genome analysis toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
-
McKenna, A.; Hanna, M.; Banks, E.; Sivachenko, A.; Cibulskis, K.; Kernytsky, A.; Garimella, K.; Altshuler, D.; Gabriel, S.; Daly, M, et al. The genome analysis toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data. Genome Res. 2010, 20, 1297-1303.
-
(2010)
Genome Res
, vol.20
, pp. 1297-1303
-
-
McKenna, A.1
Hanna, M.2
Banks, E.3
Sivachenko, A.4
Cibulskis, K.5
Kernytsky, A.6
Garimella, K.7
Altshuler, D.8
Gabriel, S.9
Daly, M.10
-
20
-
-
79955483667
-
A framework for variation discovery and genotyping using next-generation DNA sequencing data
-
DePristo, M.A.; Banks, E.; Poplin, R.; Garimella, K.V.; Maguire, J.R.; Hartl, C.; Philippakis, A.A.; del Angel, G.; Rivas, M.A.; Hanna, M, et al. A framework for variation discovery and genotyping using next-generation DNA sequencing data. Nat Genet. 2011, 43, 491-498.
-
(2011)
Nat Genet
, vol.43
, pp. 491-498
-
-
Depristo, M.A.1
Banks, E.2
Poplin, R.3
Garimella, K.V.4
Maguire, J.R.5
Hartl, C.6
Philippakis, A.A.7
Del, A.G.8
Rivas, M.A.9
Hanna, M.10
-
21
-
-
84907807071
-
-
snpEff (accessed on 15 February 2012)
-
Cingolani, P. snpEff: Variant effect prediction. Available online: http://snpeff.sourceforge.net(accessed on 15 February 2012).
-
Variant Effect Prediction
-
-
Cingolani, P.1
|