-
1
-
-
77249123407
-
Signatures of mutation and selection in the cancer genome
-
doi:10.1038/nature08768
-
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 (2010) Signatures of mutation and selection in the cancer genome. Nature 463 (7283):893-898. doi:10.1038/nature08768
-
(2010)
Nature
, vol.463
, Issue.7283
, 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..
-
2
-
-
23744470383
-
Human ribosomal RNA gene arrays display a broad range of palindromic structures
-
DOI 10.1101/gr.3970105
-
Caburet S, Conti C, Schurra C, Lebofsky R, Edelstein SJ, Bensimon A (2005) Human ribosomal RNA gene arrays display a broad range of palindromic structures. Genome Res 15(8):1079-1085. doi:10.1101/gr.3970105 (Pubitemid 41126863)
-
(2005)
Genome Research
, vol.15
, Issue.8
, pp. 1079-1085
-
-
Caburet, S.1
Conti, C.2
Schurra, C.3
Lebofsky, R.4
Edelstein, S.J.5
Bensimon, A.6
-
3
-
-
77954535843
-
Validated prediction of clinical outcome in sarcomas and multiple types of cancer on the basis of a gene expression signature related to genome complexity
-
doi:10.1038/nm.2174
-
Chibon F, Lagarde P, Salas S, Perot G, Brouste V, Tirode F, Lucchesi C, de Reynies A, Kauffmann A, Bui B, Terrier P, Bonvalot S, Le Cesne A, Vince-Ranchere D, Blay JY, Collin F, Guillou L, Leroux A, Coindre JM, Aurias A (2010) Validated prediction of clinical outcome in sarcomas and multiple types of cancer on the basis of a gene expression signature related to genome complexity. Nat Med 16(7):781-787. doi:10.1038/nm.2174
-
(2010)
Nat Med
, vol.16
, Issue.7
, pp. 781-787
-
-
Chibon, F.1
Lagarde, P.2
Salas, S.3
Perot, G.4
Brouste, V.5
Tirode, F.6
Lucchesi, C.7
De Reynies, A.8
Kauffmann, A.9
Bui, B.10
Terrier, P.11
Bonvalot, S.12
Le Cesne, A.13
Vince-Ranchere, D.14
Blay, J.Y.15
Collin, F.16
Guillou, L.17
Leroux, A.18
Coindre, J.M.19
Aurias, A.20
more..
-
4
-
-
8544283254
-
The comet assay for DNA damage and repair: Principles, applications, and limitations
-
doi:10.1385/MB:26:3:249
-
Collins AR (2004) The comet assay for DNA damage and repair: principles, applications, and limitations. Mol Biotechnol 26 (3):249-261. doi:10.1385/MB:26:3:249
-
(2004)
Mol Biotechnol
, vol.26
, Issue.3
, pp. 249-261
-
-
Collins, A.R.1
-
5
-
-
47049085406
-
Condensindependent rDNA decatenation introduces a temporal pattern to chromosome segregation
-
D'Ambrosio C, Kelly G, Shirahige K, Uhlmann F (2008) Condensindependent rDNA decatenation introduces a temporal pattern to chromosome segregation. Curr Biol 18(14):1084-1089
-
(2008)
Curr Biol
, vol.18
, Issue.14
, pp. 1084-1089
-
-
D'Ambrosio, C.1
Kelly, G.2
Shirahige, K.3
Uhlmann, F.4
-
6
-
-
80051992044
-
Using MACS to identify peaks from ChIP-Seq data
-
Chapter 2:Unit 2 14. doi:10.1002/0471250953.bi0214s34
-
Feng J, Liu T, Zhang Y (2011) Using MACS to identify peaks from ChIP-Seq data. Curr Protoc Bioinformatics Chapter 2:Unit 2 14. doi:10.1002/0471250953. bi0214s34
-
(2011)
Curr Protoc Bioinformatics
-
-
Feng, J.1
Liu, T.2
Zhang, Y.3
-
7
-
-
75549087826
-
COSMIC (the Catalogue of Somatic Mutations in Cancer): A resource to investigate acquired mutations in human cancer
-
doi:10.1093/nar/gkp995
-
Forbes SA, Tang G, Bindal N, Bamford S, Dawson E, Cole C, Kok CY, Jia M, Ewing R, Menzies A, Teague JW, Stratton MR, Futreal PA (2010) COSMIC (the Catalogue of Somatic Mutations in Cancer): a resource to investigate acquired mutations in human cancer. Nucleic Acids Res 38(Database issue):D652-D657. doi:10.1093/nar/gkp995
-
(2010)
Nucleic Acids Res
, vol.38
, Issue.DATABASE ISSUE
-
-
Forbes, S.A.1
Tang, G.2
Bindal, N.3
Bamford, S.4
Dawson, E.5
Cole, C.6
Kok, C.Y.7
Jia, M.8
Ewing, R.9
Menzies, A.10
Teague, J.W.11
Stratton, M.R.12
Futreal, P.A.13
-
8
-
-
0034658675
-
The condensin complex governs chromosome condensation and mitotic transmission of rDNA
-
DOI 10.1083/jcb.149.4.811
-
Freeman L, Aragon-Alcaide L, Strunnikov A (2000) The condensin complex governs chromosome condensation and mitotic transmission of rDNA. J Cell Biol 149(4):811-824 (Pubitemid 30327234)
-
(2000)
Journal of Cell Biology
, vol.149
, Issue.4
, pp. 811-824
-
-
Freeman, L.1
Aragon-Alcaide, L.2
Strunnikov, A.3
-
9
-
-
33846070952
-
TRDB-the tandem repeats database
-
doi:10.1093/nar/gkl1013
-
Gelfand Y, Rodriguez A, Benson G (2007) TRDB-the tandem repeats database. Nucleic Acids Res 35(Database issue):D80-D87. doi:10.1093/nar/gkl1013
-
(2007)
Nucleic Acids Res
, vol.35
, Issue.DATABASE ISSUE
-
-
Gelfand, Y.1
Rodriguez, A.2
Benson, G.3
-
10
-
-
50049112678
-
Clustering of yeast tRNA genes is mediated by specific association of condensin with tRNA gene transcription complexes
-
doi:10.1101/gad.1675908
-
Haeusler RA, Pratt-Hyatt M, Good PD, Gipson TA, Engelke DR (2008) Clustering of yeast tRNA genes is mediated by specific association of condensin with tRNA gene transcription complexes. Genes Dev 22(16):2204-2214. doi:10.1101/gad.1675908
-
(2008)
Genes Dev
, vol.22
, Issue.16
, pp. 2204-2214
-
-
Haeusler, R.A.1
Pratt-Hyatt, M.2
Good, P.D.3
Gipson, T.A.4
Engelke, D.R.5
-
11
-
-
34249875732
-
Condensin mutations and abnormal chromosomal structures in pyothorax-associated lymphoma
-
DOI 10.1111/j.1349-7006.2007.00500.x
-
Ham MF, Takakuwa T, Rahadiani N, Tresnasari K, Nakajima H, Aozasa K (2007) Condensin mutations and abnormal chromosomal structures in pyothorax-associated lymphoma. Cancer Sci 98 (7):1041-1047. doi:10.1111/j.1349- 7006.2007.00500.x (Pubitemid 46865389)
-
(2007)
Cancer Science
, vol.98
, Issue.7
, pp. 1041-1047
-
-
Ham, M.F.1
Takakuwa, T.2
Rahadiani, N.3
Tresnasari, K.4
Nakajima, H.5
Aozasa, K.6
-
12
-
-
33646177549
-
At the heart of the chromosome: SMC proteins in action
-
doi:10.1038/nrm1909
-
Hirano T (2006) At the heart of the chromosome: SMC proteins in action. Nat RevMol Cell Biol 7(5):311-322. doi:10.1038/nrm1909
-
(2006)
Nat RevMol Cell Biol
, vol.7
, Issue.5
, pp. 311-322
-
-
Hirano, T.1
-
13
-
-
77951498531
-
High-resolution profiling of gammaH2AX around DNA double strand breaks in the mammalian genome
-
doi:10.1038/emboj.2010.38
-
Iacovoni JS, Caron P, Lassadi I, Nicolas E, Massip L, Trouche D, Legube G (2010) High-resolution profiling of gammaH2AX around DNA double strand breaks in the mammalian genome. EMBO J 29(8):1446-1457. doi:10.1038/emboj.2010.38
-
(2010)
EMBO J
, vol.29
, Issue.8
, pp. 1446-1457
-
-
Iacovoni, J.S.1
Caron, P.2
Lassadi, I.3
Nicolas, E.4
Massip, L.5
Trouche, D.6
Legube, G.7
-
14
-
-
80052020636
-
Using CisGenome to analyze ChIP-chip and ChIP-seq Data
-
Chapter 2:Unit2 13. doi:10.1002/0471250953.bi0213s33
-
Ji H, Jiang H, Ma W, Wong WH (2011) Using CisGenome to analyze ChIP-chip and ChIP-seq Data. Curr Protoc Bioinformatics Chapter 2:Unit2 13. doi:10.1002/0471250953.bi0213s33
-
(2011)
Curr Protoc Bioinformatics
-
-
Ji, H.1
Jiang, H.2
Ma, W.3
Wong, W.H.4
-
15
-
-
42349111552
-
A universal classification of eukaryotic transposable elements implemented in Repbase
-
doi:10.1038/nrg2165-c1, author reply 414
-
Kapitonov VV, Jurka J (2008) A universal classification of eukaryotic transposable elements implemented in Repbase. Nat Rev Genet 9 (5):411-412. doi:10.1038/nrg2165-c1, author reply 414
-
(2008)
Nat Rev Genet
, vol.9
, Issue.5
, pp. 411-412
-
-
Kapitonov, V.V.1
Jurka, J.2
-
16
-
-
72449122779
-
Parental origin of sequence variants associated with complex diseases
-
doi:10.1038/nature08625
-
Kong A, Steinthorsdottir V, Masson G, Thorleifsson G, Sulem P, Besenbacher S, Jonasdottir A, Sigurdsson A, Kristinsson KT, Frigge ML, Gylfason A, Olason PI, Gudjonsson SA, Sverrisson S, Stacey SN, Sigurgeirsson B, Benediktsdottir KR, Sigurdsson H, Jonsson T, Benediktsson R, Olafsson JH, Johannsson OT, Hreidarsson AB, Sigurdsson G, Ferguson-Smith AC, Gudbjartsson DF, Thorsteinsdottir U, Stefansson K (2009) Parental origin of sequence variants associated with complex diseases. Nature 462 (7275):868-874. doi:10.1038/nature08625
-
(2009)
Nature
, vol.462
, Issue.7275
, pp. 868-874
-
-
Kong, A.1
Steinthorsdottir, V.2
Masson, G.3
Thorleifsson, G.4
Sulem, P.5
Besenbacher, S.6
Jonasdottir, A.7
Sigurdsson, A.8
Kristinsson, K.T.9
Frigge, M.L.10
Gylfason, A.11
Olason, P.I.12
Gudjonsson, S.A.13
Sverrisson, S.14
Stacey, S.N.15
Sigurgeirsson, B.16
Benediktsdottir, K.R.17
Sigurdsson, H.18
Jonsson, T.19
Benediktsson, R.20
Olafsson, J.H.21
Johannsson, O.T.22
Hreidarsson, A.B.23
Sigurdsson, G.24
Ferguson-Smith, A.C.25
Gudbjartsson, D.F.26
Thorsteinsdottir, U.27
Stefansson, K.28
more..
-
17
-
-
62349130698
-
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
-
doi:10.1186/gb-2009- 10-3-r25
-
Langmead B, Trapnell C, Pop M, Salzberg SL (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10(3):R25. doi:10.1186/gb-2009- 10-3-r25
-
(2009)
Genome Biol
, vol.10
, Issue.3
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
18
-
-
33645814398
-
CTCF mediates interchromosomal colocalization between Igf2/H19 and Wsb1/Nf1
-
doi:10.1126/science.1123191
-
Ling JQ, Li T, Hu JF, Vu TH, Chen HL, Qiu XW, Cherry AM, Hoffman AR (2006) CTCF mediates interchromosomal colocalization between Igf2/H19 and Wsb1/Nf1. Science 312 (5771):269-272. doi:10.1126/science.1123191
-
(2006)
Science
, vol.312
, Issue.5771
, pp. 269-272
-
-
Ling, J.Q.1
Li, T.2
Hu, J.F.3
Vu, T.H.4
Chen, H.L.5
Qiu, X.W.6
Cherry, A.M.7
Hoffman, A.R.8
-
19
-
-
34249989400
-
Spreading of mammalian DNA-damage response factors studied by ChIP-chip at damaged telomeres
-
doi:10.1038/sj.emboj. 7601719
-
Meier A, Fiegler H, Munoz P, Ellis P, Rigler D, Langford C, Blasco MA, Carter N, Jackson SP (2007) Spreading of mammalian DNA-damage response factors studied by ChIP-chip at damaged telomeres. EMBO J 26(11):2707-2718. doi:10.1038/sj.emboj. 7601719
-
(2007)
EMBO J
, vol.26
, Issue.11
, pp. 2707-2718
-
-
Meier, A.1
Fiegler, H.2
Munoz, P.3
Ellis, P.4
Rigler, D.5
Langford, C.6
Blasco, M.A.7
Carter, N.8
Jackson, S.P.9
-
20
-
-
38349006460
-
The complete removal of cohesin from chromosome arms depends on separase
-
doi:10.1242/ jcs.011528
-
Nakajima M, Kumada K, Hatakeyama K, Noda T, Peters JM, Hirota T (2007) The complete removal of cohesin from chromosome arms depends on separase. J Cell Sci 120(Pt 23):4188-4196. doi:10.1242/ jcs.011528
-
(2007)
J Cell Sci
, vol.120
, Issue.PART 23
, pp. 4188-4196
-
-
Nakajima, M.1
Kumada, K.2
Hatakeyama, K.3
Noda, T.4
Peters, J.M.5
Hirota, T.6
-
21
-
-
74449093973
-
A comprehensive catalogue of somatic mutations from a human cancer genome
-
doi:10.1038/nature08658
-
Pleasance ED, Cheetham RK, Stephens PJ, McBride DJ, Humphray SJ, Greenman CD, Varela I, Lin ML, Ordonez GR, Bignell GR, Ye K, Alipaz J, Bauer MJ, Beare D, Butler A, Carter RJ, Chen L, Cox AJ, Edkins S, Kokko-Gonzales PI, Gormley NA, Grocock RJ, Haudenschild CD, Hims MM, James T, Jia M, Kingsbury Z, Leroy C, Marshall J, Menzies A, Mudie LJ, Ning Z, Royce T, Schulz-Trieglaff OB, Spiridou A, Stebbings LA, Szajkowski L, Teague J, Williamson D, Chin L, Ross MT, Campbell PJ, Bentley DR, Futreal PA, Stratton MR (2010) A comprehensive catalogue of somatic mutations from a human cancer genome. Nature 463 (7278):191-196. doi:10.1038/nature08658
-
(2010)
Nature
, vol.463
, Issue.7278
, pp. 191-196
-
-
Pleasance, E.D.1
Cheetham, R.K.2
Stephens, P.J.3
McBride, D.J.4
Humphray, S.J.5
Greenman, C.D.6
Varela, I.7
Lin, M.L.8
Ordonez, G.R.9
Bignell, G.R.10
Ye, K.11
Alipaz, J.12
Bauer, M.J.13
Beare, D.14
Butler, A.15
Carter, R.J.16
Chen, L.17
Cox, A.J.18
Edkins, S.19
Kokko-Gonzales, P.I.20
Gormley, N.A.21
Grocock, R.J.22
Haudenschild, C.D.23
Hims, M.M.24
James, T.25
Jia, M.26
Kingsbury, Z.27
Leroy, C.28
Marshall, J.29
Menzies, A.30
Mudie, L.J.31
Ning, Z.32
Royce, T.33
Schulz-Trieglaff, O.B.34
Spiridou, A.35
Stebbings, L.A.36
Szajkowski, L.37
Teague, J.38
Williamson, D.39
Chin, L.40
Ross, M.T.41
Campbell, P.J.42
Bentley, D.R.43
Futreal, P.A.44
Stratton, M.R.45
more..
-
22
-
-
77951770756
-
BEDTools: A flexible suite of utilities for comparing genomic features
-
doi:10.1093/bioinformatics/btq033
-
Quinlan AR, Hall IM (2010) BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26(6):841-842. doi:10.1093/ bioinformatics/btq033
-
(2010)
Bioinformatics
, vol.26
, Issue.6
, pp. 841-842
-
-
Quinlan, A.R.1
Hall, I.M.2
-
23
-
-
73449096761
-
Investigating repetitively matching short sequencing reads: The enigmatic nature of H3K9me3
-
Rosenfeld JA, Xuan Z, DeSalle R (2009) Investigating repetitively matching short sequencing reads: the enigmatic nature of H3K9me3. Epigenetics 4(7):476-486
-
(2009)
Epigenetics
, vol.4
, Issue.7
, pp. 476-486
-
-
Rosenfeld, J.A.1
Xuan, Z.2
DeSalle, R.3
-
24
-
-
69949086762
-
Human condensin function is essential for centromeric chromatin assembly and proper sister kinetochore orientation
-
doi:10.1371/journal.pone.0006831
-
Samoshkin A, Arnaoutov A, Jansen LE, Ouspenski I, Dye L, Karpova T, McNally J, Dasso M, Cleveland DW, Strunnikov A (2009) Human condensin function is essential for centromeric chromatin assembly and proper sister kinetochore orientation. PLoS One 4 (8):e6831. doi:10.1371/journal.pone.0006831
-
(2009)
PLoS One
, vol.4
, Issue.8
-
-
Samoshkin, A.1
Arnaoutov, A.2
Jansen, L.E.3
Ouspenski, I.4
Dye, L.5
Karpova, T.6
McNally, J.7
Dasso, M.8
Cleveland, D.W.9
Strunnikov, A.10
-
25
-
-
33750353597
-
Structural and functional dynamics of human centromeric chromatin
-
DOI 10.1146/annurev.genom.7.080505.115613
-
Schueler MG, Sullivan BA (2006) Structural and functional dynamics of human centromeric chromatin. Annu Rev Genom Hum Genet 7:301-313. doi:10.1146/annurev.genom.7.080505.115613 (Pubitemid 44627932)
-
(2006)
Annual Review of Genomics and Human Genetics
, vol.7
, pp. 301-313
-
-
Schueler, M.G.1
Sullivan, B.A.2
-
26
-
-
45849117573
-
Activation of the cellular DNA damage response in the absence of DNA lesions
-
DOI 10.1126/science.1159051
-
Soutoglou E, Misteli T (2008) Activation of the cellular DNA damage response in the absence of DNA lesions. Science 320 (5882):1507-1510. doi:10.1126/science.1159051 (Pubitemid 351929432)
-
(2008)
Science
, vol.320
, Issue.5882
, pp. 1507-1510
-
-
Soutoglou, E.1
Misteli, T.2
-
27
-
-
78650959663
-
Massive genomic rearrangement acquired in a single catastrophic event during cancer development
-
doi:10.1016/j.cell.2010.11.055
-
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, Futreal PA, Campbell PJ (2011) Massive genomic rearrangement acquired in a single catastrophic event during cancer development. Cell 144 (1):27-40. doi:10.1016/j.cell.2010.11.055
-
(2011)
Cell
, vol.144
, Issue.1
, 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
Futreal, P.A.31
Campbell, P.J.32
more..
-
28
-
-
77952305276
-
One-hit wonders of genomic instability
-
doi:10.1186/1747-1028-5-15
-
Strunnikov AV (2010) One-hit wonders of genomic instability. Cell Div 5(1):15. doi:10.1186/1747-1028-5-15
-
(2010)
Cell Div
, vol.5
, Issue.1
, pp. 15
-
-
Strunnikov, A.V.1
-
29
-
-
33746934637
-
Ribosomal DNA transcription-dependent processes interfere with chromosome segregation
-
DOI 10.1128/MCB.00693-06
-
Tomson BN, D'Amours D, Adamson BS, Aragon L, Amon A (2006) Ribosomal DNA transcription-dependent processes interfere with chromosome segregation. Mol Cell Biol 26 (16):6239-6247 (Pubitemid 44204540)
-
(2006)
Molecular and Cellular Biology
, vol.26
, Issue.16
, pp. 6239-6247
-
-
Tomson, B.N.1
D'Amours, D.2
Adamson, B.S.3
Aragon, L.4
Amon, A.5
-
30
-
-
33749631984
-
Condensin function in mitotic nucleolar segregation is regulated by rDNA transcription
-
Wang BD, Butylin P, Strunnikov A (2006) Condensin function in mitotic nucleolar segregation is regulated by rDNA transcription. Cell Cycle 5(19):2260-2267 (Pubitemid 44546563)
-
(2006)
Cell Cycle
, vol.5
, Issue.19
, pp. 2260-2267
-
-
Wang, B.-D.1
Butylin, P.2
Strunnikov, A.3
-
31
-
-
39149121436
-
Cohesin mediates transcriptional insulation by CCCTC-binding factor
-
DOI 10.1038/nature06634, PII NATURE06634
-
Wendt KS, Yoshida K, Itoh T, Bando M, Koch B, Schirghuber E, Tsutsumi S, Nagae G, Ishihara K, Mishiro T, Yahata K, Imamoto F, Aburatani H, Nakao M, Imamoto N, Maeshima K, Shirahige K, Peters JM (2008) Cohesin mediates transcriptional insulation by CCCTC-binding factor. Nature 451(7180):796-801. doi:10.1038/nature06634 (Pubitemid 351253176)
-
(2008)
Nature
, vol.451
, Issue.7180
, pp. 796-801
-
-
Wendt, K.S.1
Yoshida, K.2
Itoh, T.3
Bando, M.4
Koch, B.5
Schirghuber, E.6
Tsutsumi, S.7
Nagae, G.8
Ishihara, K.9
Mishiro, T.10
Yahata, K.11
Imamoto, F.12
Aburatani, H.13
Nakao, M.14
Imamoto, N.15
Maeshima, K.16
Shirahige, K.17
Peters, J.-M.18
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