-
1
-
-
77958471357
-
Differential expression analysis for sequence count data
-
Anders, S., and W. Huber. 2010. Differential expression analysis for sequence count data. Genome Biol. 11:R106. http://dx.doi.org/10.1186/gb-2010-11-10-r106
-
(2010)
Genome Biol.
, vol.11
, pp. R106
-
-
Anders, S.1
Huber, W.2
-
2
-
-
84928987900
-
HTSeq-a Python framework to work with high-throughput sequencing data
-
Anders, S., P.T. Pyl, and W. Huber. 2015. HTSeq-a Python framework to work with high-throughput sequencing data. Bioinformatics. 31:166-169. http://dx.doi.org/10.1093/bioinformatics/btu638
-
(2015)
Bioinformatics
, vol.31
, pp. 166-169
-
-
Anders, S.1
Pyl, P.T.2
Huber, W.3
-
3
-
-
84888354078
-
Recurrent inactivation of STAG2 in bladder cancer is not associated with aneuploidy
-
Balbás-Martínez, C., A. Sagrera, E. Carrillo-de-Santa-Pau, J. Earl, M. Márquez, M. Vazquez, E. Lapi, F. Castro-Giner, S. Beltran, M. Bayés, et al. 2013. Recurrent inactivation of STAG2 in bladder cancer is not associated with aneuploidy. Nat. Genet. 45:1464-1469. http://dx.doi .org/10.1038/ng.2799
-
(2013)
Nat. Genet.
, vol.45
, pp. 1464-1469
-
-
Balbás-Martínez, C.1
Sagrera, A.2
Carrillo-de-Santa-Pau, E.3
Earl, J.4
Márquez, M.5
Vazquez, M.6
Lapi, E.7
Castro-Giner, F.8
Beltran, S.9
Bayés, M.10
-
4
-
-
84907419946
-
Inducible in vivo silencing of Brd4 identifies potential toxicities of sustained BET protein inhibition
-
Bolden, J.E., N. Tasdemir, L.E. Dow, J.H. van Es, J.E. Wilkinson, Z. Zhao, H. Clevers, and S.W. Lowe. 2014. Inducible in vivo silencing of Brd4 identifies potential toxicities of sustained BET protein inhibition. Cell Reports. 8:1919-1929. http://dx.doi.org/10.1016/j.celrep.2014.08.025
-
(2014)
Cell Reports
, vol.8
, pp. 1919-1929
-
-
Bolden, J.E.1
Tasdemir, N.2
Dow, L.E.3
van Es, J.H.4
Wilkinson, J.E.5
Zhao, Z.6
Clevers, H.7
Lowe, S.W.8
-
5
-
-
84949212255
-
ATAC-seq: A method for assaying chromatin accessibility genome-wide
-
Buenrostro, J.D., B. Wu, H.Y. Chang, and W.J. Greenleaf. 2015. ATAC-seq: A method for assaying chromatin accessibility genome-wide. Curr. Protoc. Mol. Biol. 109:1-9. http://dx.doi.org/10.1002/0471142727.mb2129s109
-
(2015)
Curr. Protoc. Mol. Biol.
, vol.109
, pp. 1-9
-
-
Buenrostro, J.D.1
Wu, B.2
Chang, H.Y.3
Greenleaf, W.J.4
-
6
-
-
84878372012
-
Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia
-
Cancer Genome Atlas Research Network. 2013. Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia. N. Engl. J. Med. 368:2059-2074. http://dx.doi.org/10.1056/NEJMoa1301689
-
(2013)
N. Engl. J. Med.
, vol.368
, pp. 2059-2074
-
-
-
7
-
-
84921517163
-
Enforced differentiation of Dnmt3a-null bone marrow leads to failure with c-Kit mutations driving leukemic transformation
-
Celik, H., C. Mallaney, A. Kothari, E.L. Ostrander, E. Eultgen, A. Martens, C.A. Miller, J. Hundal, J.M. Klco, and G.A. Challen. 2015. Enforced differentiation of Dnmt3a-null bone marrow leads to failure with c-Kit mutations driving leukemic transformation. Blood. 125:619-628. http://dx.doi.org/10.1182/blood-2014-08-594564
-
(2015)
Blood
, vol.125
, pp. 619-628
-
-
Celik, H.1
Mallaney, C.2
Kothari, A.3
Ostrander, E.L.4
Eultgen, E.5
Martens, A.6
Miller, C.A.7
Hundal, J.8
Klco, J.M.9
Challen, G.A.10
-
8
-
-
84866124810
-
FLT3-ITD knockin impairs hematopoietic stem cell quiescence/homeostasis, leading to myeloproliferative neoplasm
-
Chu, S.H., D. Heiser, L. Li, I. Kaplan, M. Collector, D. Huso, S.J. Sharkis, C. Civin, and D. Small. 2012. FLT3-ITD knockin impairs hematopoietic stem cell quiescence/homeostasis, leading to myeloproliferative neoplasm. Cell Stem Cell. 11:346-358. http://dx.doi.org/10.1016/j.stem.2012.05.027
-
(2012)
Cell Stem Cell
, vol.11
, pp. 346-358
-
-
Chu, S.H.1
Heiser, D.2
Li, L.3
Kaplan, I.4
Collector, M.5
Huso, D.6
Sharkis, S.J.7
Civin, C.8
Small, D.9
-
9
-
-
12344325677
-
GATA1 in normal and malignant hematopoiesis
-
Crispino, J.D. 2005. GATA1 in normal and malignant hematopoiesis. Semin. Cell Dev. Biol. 16:137-147. http://dx.doi.org/10.1016/j.semcdb .2004.11.002
-
(2005)
Semin. Cell Dev. Biol.
, vol.16
, pp. 137-147
-
-
Crispino, J.D.1
-
10
-
-
84908447818
-
The genomic landscape of pediatric Ewing sarcoma
-
Crompton, B.D., C. Stewart, A. Taylor-Weiner, G. Alexe, K.C. Kurek, M.L. Calicchio, A. Kiezun, S.L. Carter, S.A. Shukla, S.S. Mehta, et al. 2014. The genomic landscape of pediatric Ewing sarcoma. Cancer Discov. 4:1326-1341. http://dx.doi.org/10.1158/2159-8290.CD-13-1037
-
(2014)
Cancer Discov.
, vol.4
, pp. 1326-1341
-
-
Crompton, B.D.1
Stewart, C.2
Taylor-Weiner, A.3
Alexe, G.4
Kurek, K.C.5
Calicchio, M.L.6
Kiezun, A.7
Carter, S.L.8
Shukla, S.A.9
Mehta, S.S.10
-
11
-
-
84862776906
-
Clonal evolution in relapsed acute myeloid leukaemia revealed by whole-genome sequencing
-
Ding, L., T.J. Ley, D.E. Larson, C.A. Miller, D.C. Koboldt, J.S. Welch, J.K. Ritchey, M.A. Young, T. Lamprecht, M.D. McLellan, et al. 2012. Clonal evolution in relapsed acute myeloid leukaemia revealed by whole-genome sequencing. Nature. 481:506-510. http://dx.doi .org/10.1038/nature10738
-
(2012)
Nature
, vol.481
, pp. 506-510
-
-
Ding, L.1
Ley, T.J.2
Larson, D.E.3
Miller, C.A.4
Koboldt, D.C.5
Welch, J.S.6
Ritchey, J.K.7
Young, M.A.8
Lamprecht, T.9
McLellan, M.D.10
-
12
-
-
84861095603
-
Topological domains in mammalian genomes identified by analysis of chromatin interactions
-
Dixon, J.R., S. Selvaraj, F. Yue, A. Kim, Y. Li, Y. Shen, M. Hu, J.S. Liu, and B. Ren. 2012. Topological domains in mammalian genomes identified by analysis of chromatin interactions. Nature. 485:376-380. http://dx.doi.org/10.1038/nature11082
-
(2012)
Nature
, vol.485
, pp. 376-380
-
-
Dixon, J.R.1
Selvaraj, S.2
Yue, F.3
Kim, A.4
Li, Y.5
Shen, Y.6
Hu, M.7
Liu, J.S.8
Ren, B.9
-
13
-
-
84916880365
-
Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes
-
Dowen, J.M., Z.P. Fan, D. Hnisz, G. Ren, B.J. Abraham, L.N. Zhang, A.S. Weintraub, J. Schuijers, T.I. Lee, K. Zhao, and R.A. Young. 2014. Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes. Cell. 159:374-387. http://dx.doi .org/10.1016/j.cell.2014.09.030
-
(2014)
Cell
, vol.159
, pp. 374-387
-
-
Dowen, J.M.1
Fan, Z.P.2
Hnisz, D.3
Ren, G.4
Abraham, B.J.5
Zhang, L.N.6
Weintraub, A.S.7
Schuijers, J.8
Lee, T.I.9
Zhao, K.10
Young, R.A.11
-
14
-
-
84920024296
-
Clonal hematopoiesis and blood-cancer risk inferred from blood DNA sequence
-
Genovese, G., A.K. Kähler, R.E. Handsaker, J. Lindberg, S.A. Rose, S.F. Bakhoum, K. Chambert, E. Mick, B.M. Neale, M. Fromer, et al. 2014. Clonal hematopoiesis and blood-cancer risk inferred from blood DNA sequence. N. Engl. J. Med. 371:2477-2487. http://dx.doi .org/10.1056/NEJMoa1409405
-
(2014)
N. Engl. J. Med.
, vol.371
, pp. 2477-2487
-
-
Genovese, G.1
Kähler, A.K.2
Handsaker, R.E.3
Lindberg, J.4
Rose, S.A.5
Bakhoum, S.F.6
Chambert, K.7
Mick, E.8
Neale, B.M.9
Fromer, M.10
-
15
-
-
0037459376
-
Chromosomal cohesin forms a ring
-
Gruber, S., C.H. Haering, and K. Nasmyth. 2003. Chromosomal cohesin forms a ring. Cell. 112:765-777. http://dx.doi.org/10.1016/S0092-8674(03)00162-4
-
(2003)
Cell
, vol.112
, pp. 765-777
-
-
Gruber, S.1
Haering, C.H.2
Nasmyth, K.3
-
16
-
-
84888380730
-
Whole-genome and whole-exome sequencing of bladder cancer identifies frequent alterations in genes involved in sister chromatid cohesion and segregation
-
Guo, G., X. Sun, C. Chen, S. Wu, P. Huang, Z. Li, M. Dean, Y. Huang, W. Jia, Q. Zhou, et al. 2013. Whole-genome and whole-exome sequencing of bladder cancer identifies frequent alterations in genes involved in sister chromatid cohesion and segregation. Nat. Genet. 45:1459-1463. http://dx.doi.org/10.1038/ng.2798
-
(2013)
Nat. Genet.
, vol.45
, pp. 1459-1463
-
-
Guo, G.1
Sun, X.2
Chen, C.3
Wu, S.4
Huang, P.5
Li, Z.6
Dean, M.7
Huang, Y.8
Jia, W.9
Zhou, Q.10
-
17
-
-
84907990640
-
Cohesin and its regulation: on the logic of X-shaped chromosomes
-
Haarhuis, J.H., A.M. Elbatsh, and B.D. Rowland. 2014. Cohesin and its regulation: on the logic of X-shaped chromosomes. Dev. Cell. 31:7-18. http://dx.doi.org/10.1016/j.devcel.2014.09.010
-
(2014)
Dev. Cell
, vol.31
, pp. 7-18
-
-
Haarhuis, J.H.1
Elbatsh, A.M.2
Rowland, B.D.3
-
18
-
-
18044393595
-
Dissociation of cohesin from chromosome arms and loss of arm cohesion during early mitosis depends on phosphorylation of SA2
-
Hauf, S., E. Roitinger, B. Koch, C.M. Dittrich, K. Mechtler, and J.M. Peters. 2005. Dissociation of cohesin from chromosome arms and loss of arm cohesion during early mitosis depends on phosphorylation of SA2. PLoS Biol. 3:e69. http://dx.doi.org/10.1371/journal.pbio.0030069
-
(2005)
PLoS Biol.
, vol.3
, pp. e69
-
-
Hauf, S.1
Roitinger, E.2
Koch, B.3
Dittrich, C.M.4
Mechtler, K.5
Peters, J.M.6
-
19
-
-
20544465434
-
SMC proteins and chromosome mechanics: from bacteria to humans
-
Hirano, T. 2005. SMC proteins and chromosome mechanics: from bacteria to humans. Philos. Trans. R. Soc. Lond. B Biol. Sci. 360:507-514. http://dx.doi.org/10.1098/rstb.2004.1606
-
(2005)
Philos. Trans. R. Soc. Lond. B Biol. Sci.
, vol.360
, pp. 507-514
-
-
Hirano, T.1
-
20
-
-
84876105719
-
Chromatin loops, gene positioning, and gene expression
-
Holwerda, S., and W. de Laat. 2012. Chromatin loops, gene positioning, and gene expression. Front. Genet. 3:217. http://dx.doi.org/10.3389/fgene.2012.00217
-
(2012)
Front. Genet.
, vol.3
, pp. 217
-
-
Holwerda, S.1
de Laat, W.2
-
21
-
-
0036830547
-
Cohesin defects lead to premature sister chromatid separation, kinetochore dysfunction, and spindleassembly checkpoint activation
-
Hoque, M.T., and F. Ishikawa. 2002. Cohesin defects lead to premature sister chromatid separation, kinetochore dysfunction, and spindleassembly checkpoint activation. J. Biol. Chem. 277:42306-42314. http://dx.doi.org/10.1074/jbc.M206836200
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 42306-42314
-
-
Hoque, M.T.1
Ishikawa, F.2
-
22
-
-
84907304074
-
The landscape of somatic mutations in epigenetic regulators across 1,000 paediatric cancer genomes
-
Huether, R., L. Dong, X. Chen, G. Wu, M. Parker, L. Wei, J. Ma, M.N. Edmonson, E.K. Hedlund, M.C. Rusch, et al. 2014. The landscape of somatic mutations in epigenetic regulators across 1,000 paediatric cancer genomes. Nat. Commun. 5:3630. http://dx.doi.org/10.1038/ncomms4630
-
(2014)
Nat. Commun.
, vol.5
, pp. 3630
-
-
Huether, R.1
Dong, L.2
Chen, X.3
Wu, G.4
Parker, M.5
Wei, L.6
Ma, J.7
Edmonson, M.N.8
Hedlund, E.K.9
Rusch, M.C.10
-
23
-
-
84949287040
-
icisTarget 2015 update: generalized cis-regulatory enrichment analysis in human, mouse and fly
-
Imrichová, H., G. Hulselmans, Z.K. Atak, D. Potier, and S. Aerts. 2015. icisTarget 2015 update: generalized cis-regulatory enrichment analysis in human, mouse and fly. Nucleic Acids Res. 43:W57-W64. http://dx.doi .org/10.1093/nar/gkv395
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. W57-W64
-
-
Imrichová, H.1
Hulselmans, G.2
Atak, Z.K.3
Potier, D.4
Aerts, S.5
-
24
-
-
84865827060
-
Clonal evolution of preleukemic hematopoietic stem cells precedes human acute myeloid leukemia
-
149ra118
-
Jan, M., T.M. Snyder, M.R. Corces-Zimmerman, P. Vyas, I.L. Weissman, S.R. Quake, and R. Majeti. 2012. Clonal evolution of preleukemic hematopoietic stem cells precedes human acute myeloid leukemia. Sci. Transl. Med. 4:149ra118. http://dx.doi.org/10.1126/scitranslmed.3004315
-
(2012)
Sci. Transl. Med.
, vol.4
-
-
Jan, M.1
Snyder, T.M.2
Corces-Zimmerman, M.R.3
Vyas, P.4
Weissman, I.L.5
Quake, S.R.6
Majeti, R.7
-
25
-
-
77957139539
-
Mediator and cohesin connect gene expression and chromatin architecture
-
Kagey, M.H., J.J. Newman, S. Bilodeau, Y. Zhan, D.A. Orlando, N.L. van Berkum, C.C. Ebmeier, J. Goossens, P.B. Rahl, S.S. Levine, et al. 2010. Mediator and cohesin connect gene expression and chromatin architecture. Nature. 467:430-435. http://dx.doi.org/10.1038/nature09380
-
(2010)
Nature
, vol.467
, pp. 430-435
-
-
Kagey, M.H.1
Newman, J.J.2
Bilodeau, S.3
Zhan, Y.4
Orlando, D.A.5
van Berkum, N.L.6
Ebmeier, C.C.7
Goossens, J.8
Rahl, P.B.9
Levine, S.S.10
-
26
-
-
84885021313
-
Recurrent mutations in multiple components of the cohesin complex in myeloid neoplasms
-
Kon, A., L.Y. Shih, M. Minamino, M. Sanada, Y. Shiraishi, Y. Nagata, K. Yoshida, Y. Okuno, M. Bando, R. Nakato, et al. 2013. Recurrent mutations in multiple components of the cohesin complex in myeloid neoplasms. Nat. Genet. 45:1232-1237. http://dx.doi.org/10.1038/ng.2731
-
(2013)
Nat. Genet.
, vol.45
, pp. 1232-1237
-
-
Kon, A.1
Shih, L.Y.2
Minamino, M.3
Sanada, M.4
Shiraishi, Y.5
Nagata, Y.6
Yoshida, K.7
Okuno, Y.8
Bando, M.9
Nakato, R.10
-
27
-
-
84878928394
-
Imbalance of SMC1 and SMC3 cohesins causes specific and distinct effects
-
Laugsch, M., J. Seebach, H. Schnittler, and R. Jessberger. 2013. Imbalance of SMC1 and SMC3 cohesins causes specific and distinct effects. PLoS ONE. 8:e65149. http://dx.doi.org/10.1371/journal.pone.0065149
-
(2013)
PLoS ONE
, vol.8
, pp. e65149
-
-
Laugsch, M.1
Seebach, J.2
Schnittler, H.3
Jessberger, R.4
-
28
-
-
35048848955
-
FLT3 mutations confer enhanced proliferation and survival properties to multipotent progenitors in a murine model of chronic myelomonocytic leukemia
-
Lee, B.H., Z. Tothova, R.L. Levine, K. Anderson, N. Buza-Vidas, D.E. Cullen, E.P. McDowell, J. Adelsperger, S. Fröhling, B.J. Huntly, et al. 2007. FLT3 mutations confer enhanced proliferation and survival properties to multipotent progenitors in a murine model of chronic myelomonocytic leukemia. Cancer Cell. 12:367-380. http://dx.doi .org/10.1016/j.ccr.2007.08.031
-
(2007)
Cancer Cell
, vol.12
, pp. 367-380
-
-
Lee, B.H.1
Tothova, Z.2
Levine, R.L.3
Anderson, K.4
Buza-Vidas, N.5
Cullen, D.E.6
McDowell, E.P.7
Adelsperger, J.8
Fröhling, S.9
Huntly, B.J.10
-
29
-
-
84926157747
-
Pan-cancer network analysis identifies combinations of rare somatic mutations across pathways and protein complexes
-
Leiserson, M.D., F. Vandin, H.T. Wu, J.R. Dobson, J.V. Eldridge, J.L. Thomas, A. Papoutsaki, Y. Kim, B. Niu, M. McLellan, et al. 2015. Pan-cancer network analysis identifies combinations of rare somatic mutations across pathways and protein complexes. Nat. Genet. 47:106-114. http://dx.doi.org/10.1038/ng.3168
-
(2015)
Nat. Genet.
, vol.47
, pp. 106-114
-
-
Leiserson, M.D.1
Vandin, F.2
Wu, H.T.3
Dobson, J.R.4
Eldridge, J.V.5
Thomas, J.L.6
Papoutsaki, A.7
Kim, Y.8
Niu, B.9
McLellan, M.10
-
30
-
-
84926347122
-
Loss of STAG2 causes aneuploidy in normal human bladder cells
-
Li, X., T.W. Zhang, J.L. Tang, P.P. Fa, J.X. Lu, F.M. Qi, Z.M. Cai, C.X. Liu, and X.J. Sun. 2015. Loss of STAG2 causes aneuploidy in normal human bladder cells. Genet. Mol. Res. 14:2638-2646. http://dx.doi .org/10.4238/2015.March.30.24
-
(2015)
Genet. Mol. Res.
, vol.14
, pp. 2638-2646
-
-
Li, X.1
Zhang, T.W.2
Tang, J.L.3
Fa, P.P.4
Lu, J.X.5
Qi, F.M.6
Cai, Z.M.7
Liu, C.X.8
Sun, X.J.9
-
31
-
-
70349873824
-
Comprehensive mapping of long-range interactions reveals folding principles of the human genome
-
Lieberman-Aiden, E., N.L. van Berkum, L. Williams, M. Imakaev, T. Ragoczy, A. Telling, I. Amit, B.R. Lajoie, P.J. Sabo, M.O. Dorschner, et al. 2009. Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science. 326:289-293. http://dx.doi.org/10.1126/science.1181369
-
(2009)
Science
, vol.326
, pp. 289-293
-
-
Lieberman-Aiden, E.1
van Berkum, N.L.2
Williams, L.3
Imakaev, M.4
Ragoczy, T.5
Telling, A.6
Amit, I.7
Lajoie, B.R.8
Sabo, P.J.9
Dorschner, M.O.10
-
32
-
-
84961554506
-
Acute myeloid leukemia ontogeny is defined by distinct somatic mutations
-
Lindsley, R.C., B.G. Mar, E. Mazzola, P.V. Grauman, S. Shareef, S.L. Allen, A. Pigneux, M. Wetzler, R.K. Stuart, H.P. Erba, et al. 2015. Acute myeloid leukemia ontogeny is defined by distinct somatic mutations. Blood. 125:1367-1376. http://dx.doi.org/10.1182/blood-2014-11-610543
-
(2015)
Blood
, vol.125
, pp. 1367-1376
-
-
Lindsley, R.C.1
Mar, B.G.2
Mazzola, E.3
Grauman, P.V.4
Shareef, S.5
Allen, S.L.6
Pigneux, A.7
Wetzler, M.8
Stuart, R.K.9
Erba, H.P.10
-
33
-
-
84887615981
-
Mutation spectrum and genotype-phenotype correlation in Cornelia de Lange syndrome
-
Mannini, L., F. Cucco, V. Quarantotti, I.D. Krantz, and A. Musio. 2013. Mutation spectrum and genotype-phenotype correlation in Cornelia de Lange syndrome. Hum. Mutat. 34:1589-1596. http://dx.doi.org/10.1002/humu.22430
-
(2013)
Hum. Mutat.
, vol.34
, pp. 1589-1596
-
-
Mannini, L.1
Cucco, F.2
Quarantotti, V.3
Krantz, I.D.4
Musio, A.5
-
34
-
-
84899519120
-
PeaKDEck: a kernel density estimator-based peak calling program for DNaseI-seq data
-
McCarthy, M.T., and C.A. O'Callaghan. 2014. PeaKDEck: a kernel density estimator-based peak calling program for DNaseI-seq data. Bioinformatics. 30:1302-1304. http://dx.doi.org/10.1093/bioinformatics/btt774
-
(2014)
Bioinformatics
, vol.30
, pp. 1302-1304
-
-
McCarthy, M.T.1
O'Callaghan, C.A.2
-
35
-
-
77952214662
-
GREAT improves functional interpretation of cis-regulatory regions
-
McLean, C.Y., D. Bristor, M. Hiller, S.L. Clarke, B.T. Schaar, C.B. Lowe, A.M. Wenger, and G. Bejerano. 2010. GREAT improves functional interpretation of cis-regulatory regions. Nat. Biotechnol. 28:495-501. http://dx.doi.org/10.1038/nbt.1630
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 495-501
-
-
McLean, C.Y.1
Bristor, D.2
Hiller, M.3
Clarke, S.L.4
Schaar, B.T.5
Lowe, C.B.6
Wenger, A.M.7
Bejerano, G.8
-
36
-
-
84923169410
-
Cohesin-dependent globules and heterochromatin shape 3D genome architecture in S. pombe
-
Mizuguchi, T., G. Fudenberg, S. Mehta, J.M. Belton, N. Taneja, H.D. Folco, P. FitzGerald, J. Dekker, L. Mirny, J. Barrowman, and S.I. Grewal. 2014. Cohesin-dependent globules and heterochromatin shape 3D genome architecture in S. pombe. Nature. 516:432-435. http://dx.doi.org/10.1038/nature13833
-
(2014)
Nature
, vol.516
, pp. 432-435
-
-
Mizuguchi, T.1
Fudenberg, G.2
Mehta, S.3
Belton, J.M.4
Taneja, N.5
Folco, H.D.6
FitzGerald, P.7
Dekker, J.8
Mirny, L.9
Barrowman, J.10
Grewal, S.I.11
-
37
-
-
79960064353
-
Tet2 loss leads to increased hematopoietic stem cell self-renewal and myeloid transformation
-
Moran-Crusio, K., L. Reavie, A. Shih, O. Abdel-Wahab, D. Ndiaye-Lobry, C. Lobry, M.E. Figueroa, A. Vasanthakumar, J. Patel, X. Zhao, et al. 2011. Tet2 loss leads to increased hematopoietic stem cell self-renewal and myeloid transformation. Cancer Cell. 20:11-24. http://dx.doi.org/10.1016/j.ccr.2011.06.001
-
(2011)
Cancer Cell
, vol.20
, pp. 11-24
-
-
Moran-Crusio, K.1
Reavie, L.2
Shih, A.3
Abdel-Wahab, O.4
Ndiaye-Lobry, D.5
Lobry, C.6
Figueroa, M.E.7
Vasanthakumar, A.8
Patel, J.9
Zhao, X.10
-
38
-
-
73349127026
-
Cohesin: its roles and mechanisms
-
Nasmyth, K., and C.H. Haering. 2009. Cohesin: its roles and mechanisms. Annu. Rev. Genet. 43:525-558. http://dx.doi.org/10.1146/annurevgenet-102108-134233
-
(2009)
Annu. Rev. Genet.
, vol.43
, pp. 525-558
-
-
Nasmyth, K.1
Haering, C.H.2
-
39
-
-
84886882646
-
Exome sequencing identifies putative drivers of progression of transient myeloproliferative disorder to AMKL in infants with Down syndrome
-
Nikolaev, S.I., F. Santoni, A. Vannier, E. Falconnet, E. Giarin, G. Basso, A. Hoischen, J.A. Veltman, J. Groet, D. Nizetic, and S.E. Antonarakis. 2013. Exome sequencing identifies putative drivers of progression of transient myeloproliferative disorder to AMKL in infants with Down syndrome. Blood. 122:554-561. http://dx.doi.org/10.1182/blood-2013-03-491936
-
(2013)
Blood
, vol.122
, pp. 554-561
-
-
Nikolaev, S.I.1
Santoni, F.2
Vannier, A.3
Falconnet, E.4
Giarin, E.5
Basso, G.6
Hoischen, A.7
Veltman, J.A.8
Groet, J.9
Nizetic, D.10
Antonarakis, S.E.11
-
40
-
-
38849121606
-
Cohesins functionally associate with CTCF on mammalian chromosome arms
-
Parelho, V., S. Hadjur, M. Spivakov, M. Leleu, S. Sauer, H.C. Gregson, A. Jarmuz, C. Canzonetta, Z. Webster, T. Nesterova, et al. 2008. Cohesins functionally associate with CTCF on mammalian chromosome arms. Cell. 132:422-433. http://dx.doi.org/10.1016/j.cell.2008.01.011
-
(2008)
Cell
, vol.132
, pp. 422-433
-
-
Parelho, V.1
Hadjur, S.2
Spivakov, M.3
Leleu, M.4
Sauer, S.5
Gregson, H.C.6
Jarmuz, A.7
Canzonetta, C.8
Webster, Z.9
Nesterova, T.10
-
41
-
-
84878860751
-
Architectural protein subclasses shape 3D organization of genomes during lineage commitment
-
Phillips-Cremins, J.E., M.E. Sauria, A. Sanyal, T.I. Gerasimova, B.R. Lajoie, J.S. Bell, C.T. Ong, T.A. Hookway, C. Guo, Y. Sun, et al. 2013. Architectural protein subclasses shape 3D organization of genomes during lineage commitment. Cell. 153:1281-1295.
-
(2013)
Cell
, vol.153
, pp. 1281-1295
-
-
Phillips-Cremins, J.E.1
Sauria, M.E.2
Sanyal, A.3
Gerasimova, T.I.4
Lajoie, B.R.5
Bell, J.S.6
Ong, C.T.7
Hookway, T.A.8
Guo, C.9
Sun, Y.10
-
42
-
-
79952696452
-
A rapid and scalable system for studying gene function in mice using conditional RNA interference
-
Premsrirut, P.K., L.E. Dow, S.Y. Kim, M. Camiolo, C.D. Malone, C. Miething, C. Scuoppo, J. Zuber, R.A. Dickins, S.C. Kogan, et al. 2011. A rapid and scalable system for studying gene function in mice using conditional RNA interference. Cell. 145:145-158. http://dx.doi .org/10.1016/j.cell.2011.03.012
-
(2011)
Cell
, vol.145
, pp. 145-158
-
-
Premsrirut, P.K.1
Dow, L.E.2
Kim, S.Y.3
Camiolo, M.4
Malone, C.D.5
Miething, C.6
Scuoppo, C.7
Zuber, J.8
Dickins, R.A.9
Kogan, S.C.10
-
43
-
-
79960062301
-
TET2 inactivation results in pleiotropic hematopoietic abnormalities in mouse and is a recurrent event during human lymphomagenesis
-
Quivoron, C., L. Couronné, V. Della Valle, C.K. Lopez, I. Plo, O. Wagner-Ballon, M. Do Cruzeiro, F. Delhommeau, B. Arnulf, M.H. Stern, et al. 2011. TET2 inactivation results in pleiotropic hematopoietic abnormalities in mouse and is a recurrent event during human lymphomagenesis. Cancer Cell. 20:25-38. http://dx.doi.org/10.1016/j.ccr.2011.06.003
-
(2011)
Cancer Cell
, vol.20
, pp. 25-38
-
-
Quivoron, C.1
Couronné, L.2
Della Valle, V.3
Lopez, C.K.4
Plo, I.5
Wagner-Ballon, O.6
Do Cruzeiro, M.7
Delhommeau, F.8
Arnulf, B.9
Stern, M.H.10
-
44
-
-
84861860413
-
Oncogene-mediated alterations in chromatin conformation
-
Rickman, D.S., T.D. Soong, B. Moss, J.M. Mosquera, J. Dlabal, S. Terry, T.Y. MacDonald, J. Tripodi, K. Bunting, V. Najfeld, et al. 2012. Oncogene-mediated alterations in chromatin conformation. Proc. Natl. Acad. Sci. USA. 109:9083-9088. http://dx.doi.org/10.1073/pnas .1112570109
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
, pp. 9083-9088
-
-
Rickman, D.S.1
Soong, T.D.2
Moss, B.3
Mosquera, J.M.4
Dlabal, J.5
Terry, S.6
MacDonald, T.Y.7
Tripodi, J.8
Bunting, K.9
Najfeld, V.10
-
45
-
-
77956476356
-
Alteration of cohesin genes in myeloid diseases
-
Rocquain, J., V. Gelsi-Boyer, J. Adélaïde, A. Murati, N. Carbuccia, N. Vey, D. Birnbaum, M.J. Mozziconacci, and M. Chaffanet. 2010. Alteration of cohesin genes in myeloid diseases. Am. J. Hematol. 85:717-719. http://dx.doi.org/10.1002/ajh.21798
-
(2010)
Am. J. Hematol.
, vol.85
, pp. 717-719
-
-
Rocquain, J.1
Gelsi-Boyer, V.2
Adélaïde, J.3
Murati, A.4
Carbuccia, N.5
Vey, N.6
Birnbaum, D.7
Mozziconacci, M.J.8
Chaffanet, M.9
-
46
-
-
80052042965
-
A role for cohesin in T-cell-receptor rearrangement and thymocyte differentiation
-
Seitan, V.C., B. Hao, K. Tachibana-Konwalski, T. Lavagnolli, H. Mira-Bontenbal, K.E. Brown, G. Teng, T. Carroll, A. Terry, K. Horan, et al. 2011. A role for cohesin in T-cell-receptor rearrangement and thymocyte differentiation. Nature. 476:467-471. http://dx.doi.org/10.1038/nature10312
-
(2011)
Nature
, vol.476
, pp. 467-471
-
-
Seitan, V.C.1
Hao, B.2
Tachibana-Konwalski, K.3
Lavagnolli, T.4
Mira-Bontenbal, H.5
Brown, K.E.6
Teng, G.7
Carroll, T.8
Terry, A.9
Horan, K.10
-
47
-
-
84890504911
-
Cohesin-based chromatin interactions enable regulated gene expression within preexisting architectural compartments
-
Seitan, V.C., A.J. Faure, Y. Zhan, R.P. McCord, B.R. Lajoie, E. Ing-Simmons, B. Lenhard, L. Giorgetti, E. Heard, A.G. Fisher, et al. 2013. Cohesin-based chromatin interactions enable regulated gene expression within preexisting architectural compartments. Genome Res. 23:2066-2077. http://dx.doi.org/10.1101/gr.161620.113
-
(2013)
Genome Res.
, vol.23
, pp. 2066-2077
-
-
Seitan, V.C.1
Faure, A.J.2
Zhan, Y.3
McCord, R.P.4
Lajoie, B.R.5
Ing-Simmons, E.6
Lenhard, B.7
Giorgetti, L.8
Heard, E.9
Fisher, A.G.10
-
48
-
-
84888434853
-
Immunological Genome Project and systems immunology
-
Shay, T., and J. Kang. 2013. Immunological Genome Project and systems immunology. Trends Immunol. 34:602-609. http://dx.doi.org/10.1016/j.it.2013.03.004
-
(2013)
Trends Immunol.
, vol.34
, pp. 602-609
-
-
Shay, T.1
Kang, J.2
-
49
-
-
84894245627
-
Identification of pre-leukaemic haematopoietic stem cells in acute leukaemia
-
published erratum appears in Nature. 2014. 508:420
-
Shlush, L.I., S. Zandi, A. Mitchell, W.C. Chen, J.M. Brandwein, V. Gupta, J.A. Kennedy, A.D. Schimmer, A.C. Schuh, K.W. Yee, et al. HALT Pan-Leukemia Gene Panel Consortium. 2014. Identification of pre-leukaemic haematopoietic stem cells in acute leukaemia. Nature. 506:328-333. (published erratum appears in Nature. 2014. 508:420) http://dx.doi.org/10.1038/nature13038
-
(2014)
Nature
, vol.506
, pp. 328-333
-
-
Shlush, L.I.1
Zandi, S.2
Mitchell, A.3
Chen, W.C.4
Brandwein, J.M.5
Gupta, V.6
Kennedy, J.A.7
Schimmer, A.D.8
Schuh, A.C.9
Yee, K.W.10
-
50
-
-
84890566970
-
Cohesin-mediated interactions organize chromosomal domain architecture
-
Sofueva, S., E. Yaffe, W.C. Chan, D. Georgopoulou, M. Vietri Rudan, H. Mira-Bontenbal, S.M. Pollard, G.P. Schroth, A. Tanay, and S. Hadjur. 2013. Cohesin-mediated interactions organize chromosomal domain architecture. EMBO J. 32:3119-3129. http://dx.doi.org/10.1038/emboj.2013.237
-
(2013)
EMBO J.
, vol.32
, pp. 3119-3129
-
-
Sofueva, S.1
Yaffe, E.2
Chan, W.C.3
Georgopoulou, D.4
Vietri Rudan, M.5
Mira-Bontenbal, H.6
Pollard, S.M.7
Schroth, G.P.8
Tanay, A.9
Hadjur, S.10
-
51
-
-
80051874823
-
Mutational inactivation of STAG2 causes aneuploidy in human cancer
-
Solomon, D.A., T. Kim, L.A. Diaz-Martinez, J. Fair, A.G. Elkahloun, B.T. Harris, J.A. Toretsky, S.A. Rosenberg, N. Shukla, M. Ladanyi, et al. 2011. Mutational inactivation of STAG2 causes aneuploidy in human cancer. Science. 333:1039-1043. http://dx.doi.org/10.1126/science.1203619
-
(2011)
Science
, vol.333
, pp. 1039-1043
-
-
Solomon, D.A.1
Kim, T.2
Diaz-Martinez, L.A.3
Fair, J.4
Elkahloun, A.G.5
Harris, B.T.6
Toretsky, J.A.7
Rosenberg, S.A.8
Shukla, N.9
Ladanyi, M.10
-
52
-
-
84888340419
-
Frequent truncating mutations of STAG2 in bladder cancer
-
Solomon, D.A., J.S. Kim, J. Bondaruk, S.F. Shariat, Z.F. Wang, A.G. Elkahloun, T. Ozawa, J. Gerard, D. Zhuang, S. Zhang, et al. 2013. Frequent truncating mutations of STAG2 in bladder cancer. Nat. Genet. 45:1428-1430. http://dx.doi.org/10.1038/ng.2800
-
(2013)
Nat. Genet.
, vol.45
, pp. 1428-1430
-
-
Solomon, D.A.1
Kim, J.S.2
Bondaruk, J.3
Shariat, S.F.4
Wang, Z.F.5
Elkahloun, A.G.6
Ozawa, T.7
Gerard, J.8
Zhuang, D.9
Zhang, S.10
-
53
-
-
84872243173
-
Variability of inducible expression across the hematopoietic system of tetracycline transactivator transgenic mice
-
Takiguchi, M., L.E. Dow, J.E. Prier, C.L. Carmichael, B.T. Kile, S.J. Turner, S.W. Lowe, D.C. Huang, and R.A. Dickins. 2013. Variability of inducible expression across the hematopoietic system of tetracycline transactivator transgenic mice. PLoS ONE. 8:e54009. http://dx.doi .org/10.1371/journal.pone.0054009
-
(2013)
PLoS ONE
, vol.8
, pp. e54009
-
-
Takiguchi, M.1
Dow, L.E.2
Prier, J.E.3
Carmichael, C.L.4
Kile, B.T.5
Turner, S.J.6
Lowe, S.W.7
Huang, D.C.8
Dickins, R.A.9
-
54
-
-
84897573903
-
Mutations in the cohesin complex in acute myeloid leukemia: clinical and prognostic implications
-
Thol, F., R. Bollin, M. Gehlhaar, C. Walter, M. Dugas, K.J. Suchanek, A. Kirchner, L. Huang, A. Chaturvedi, M. Wichmann, et al. 2014. Mutations in the cohesin complex in acute myeloid leukemia: clinical and prognostic implications. Blood. 123:914-920. http://dx.doi.org/10.1182/blood-2013-07-518746
-
(2014)
Blood
, vol.123
, pp. 914-920
-
-
Thol, F.1
Bollin, R.2
Gehlhaar, M.3
Walter, C.4
Dugas, M.5
Suchanek, K.J.6
Kirchner, A.7
Huang, L.8
Chaturvedi, A.9
Wichmann, M.10
-
55
-
-
84908611207
-
Genetic alterations of the cohesin complex genes in myeloid malignancies
-
Thota, S., A.D. Viny, H. Makishima, B. Spitzer, T. Radivoyevitch, B. Przychodzen, M.A. Sekeres, R.L. Levine, and J.P. Maciejewski. 2014. Genetic alterations of the cohesin complex genes in myeloid malignancies. Blood. 124:1790-1798. http://dx.doi.org/10.1182/blood-2014-04-567057
-
(2014)
Blood
, vol.124
, pp. 1790-1798
-
-
Thota, S.1
Viny, A.D.2
Makishima, H.3
Spitzer, B.4
Radivoyevitch, T.5
Przychodzen, B.6
Sekeres, M.A.7
Levine, R.L.8
Maciejewski, J.P.9
-
56
-
-
84908397914
-
Genomic landscape of Ewing sarcoma defines an aggressive subtype with co-association of STAG2 and TP53 mutations
-
Tirode, F., D. Surdez, X. Ma, M. Parker, M.C. Le Deley, A. Bahrami, Z. Zhang, E. Lapouble, S. Grossetête-Lalami, M. Rusch, et al. St. Jude Children's Research Hospital-Washington University Pediatric Cancer Genome Project and the International Cancer Genome Consortium. 2014. Genomic landscape of Ewing sarcoma defines an aggressive subtype with co-association of STAG2 and TP53 mutations. Cancer Discov. 4:1342-1353. http://dx.doi.org/10.1158/2159-8290.CD-14-0622
-
(2014)
Cancer Discov.
, vol.4
, pp. 1342-1353
-
-
Tirode, F.1
Surdez, D.2
Ma, X.3
Parker, M.4
Le Deley, M.C.5
Bahrami, A.6
Zhang, Z.7
Lapouble, E.8
Grossetête-Lalami, S.9
Rusch, M.10
-
57
-
-
84859885816
-
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
-
Trapnell, C., A. Roberts, L. Goff, G. Pertea, D. Kim, D.R. Kelley, H. Pimentel, S.L. Salzberg, J.L. Rinn, and L. Pachter. 2012. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nat. Protoc. 7:562-578. http://dx.doi.org/10.1038/nprot.2012.016
-
(2012)
Nat. Protoc.
, vol.7
, pp. 562-578
-
-
Trapnell, C.1
Roberts, A.2
Goff, L.3
Pertea, G.4
Kim, D.5
Kelley, D.R.6
Pimentel, H.7
Salzberg, S.L.8
Rinn, J.L.9
Pachter, L.10
-
58
-
-
12244296163
-
Depletion of Drad21/Scc1 in Drosophila cells leads to instability of the cohesin complex and disruption of mitotic progression
-
Vass, S., S. Cotterill, A.M. Valdeolmillos, J.L. Barbero, E. Lin, W.D. Warren, and M.M. Heck. 2003. Depletion of Drad21/Scc1 in Drosophila cells leads to instability of the cohesin complex and disruption of mitotic progression. Curr. Biol. 13:208-218. http://dx.doi.org/10.1016/S0960-9822(03)00047-2
-
(2003)
Curr. Biol.
, vol.13
, pp. 208-218
-
-
Vass, S.1
Cotterill, S.2
Valdeolmillos, A.M.3
Barbero, J.L.4
Lin, E.5
Warren, W.D.6
Heck, M.M.7
-
59
-
-
84952038314
-
Dose-dependent role of the cohesin complex in normal and malignant hematopoiesis
-
Viny, A.D., C.J. Ott, B. Spitzer, M. Rivas, C. Meydan, E. Papalexi, D. Yelin, K. Shank, J. Reyes, A. Chiu, et al. 2015. Dose-dependent role of the cohesin complex in normal and malignant hematopoiesis. J. Exp. Med. 212. http://dx.doi.org/10.1084/jem.20151317
-
(2015)
J. Exp. Med.
, pp. 212
-
-
Viny, A.D.1
Ott, C.J.2
Spitzer, B.3
Rivas, M.4
Meydan, C.5
Papalexi, E.6
Yelin, D.7
Shank, K.8
Reyes, J.9
Chiu, A.10
-
60
-
-
0034721656
-
Two distinct pathways remove mammalian cohesin from chromosome arms in prophase and from centromeres in anaphase
-
Waizenegger, I.C., S. Hauf, A. Meinke, and J.M. Peters. 2000. Two distinct pathways remove mammalian cohesin from chromosome arms in prophase and from centromeres in anaphase. Cell. 103:399-410. http://dx.doi.org/10.1016/S0092-8674(00)00132-X
-
(2000)
Cell
, vol.103
, pp. 399-410
-
-
Waizenegger, I.C.1
Hauf, S.2
Meinke, A.3
Peters, J.M.4
-
61
-
-
33746662847
-
Cohesin and DNA damage repair
-
Watrin, E., and J.M. Peters. 2006. Cohesin and DNA damage repair. Exp. Cell Res. 312:2687-2693. http://dx.doi.org/10.1016/j.yexcr.2006.06.024
-
(2006)
Exp. Cell Res.
, vol.312
, pp. 2687-2693
-
-
Watrin, E.1
Peters, J.M.2
-
62
-
-
39149121436
-
Cohesin mediates transcriptional insulation by CCCTC-binding factor
-
Wendt, K.S., K. Yoshida, T. Itoh, M. Bando, B. Koch, E. Schirghuber, S. Tsutsumi, G. Nagae, K. Ishihara, T. Mishiro, et al. 2008. Cohesin mediates transcriptional insulation by CCCTC-binding factor. Nature. 451:796-801. http://dx.doi.org/10.1038/nature06634
-
(2008)
Nature
, vol.451
, 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
-
63
-
-
77957865812
-
Rad21-cohesin haploinsufficiency impedes DNA repair and enhances gastrointestinal radiosensitivity in mice
-
published erratum appears in PLoS One. 5
-
Xu, H., K. Balakrishnan, J. Malaterre, M. Beasley, Y. Yan, J. Essers, E. Appeldoorn, J.M. Tomaszewski, M. Vazquez, S. Verschoor, et al. 2010. Rad21-cohesin haploinsufficiency impedes DNA repair and enhances gastrointestinal radiosensitivity in mice. PLoS ONE. 5:e12112. (published erratum appears in PLoS One. 5:http://dx.doi.org/10.1371/annotation/12224797-353c-4e9c-92f3-a0de9b527415) http://dx.doi .org/10.1371/journal.pone.0012112
-
(2010)
PLoS ONE
, vol.5
, pp. e12112
-
-
Xu, H.1
Balakrishnan, K.2
Malaterre, J.3
Beasley, M.4
Yan, Y.5
Essers, J.6
Appeldoorn, E.7
Tomaszewski, J.M.8
Vazquez, M.9
Verschoor, S.10
-
64
-
-
84882738244
-
Transcription factor binding in human cells occurs in dense clusters formed around cohesin anchor sites
-
Yan, J., M. Enge, T. Whitington, K. Dave, J. Liu, I. Sur, B. Schmierer, A. Jolma, T. Kivioja, M. Taipale, and J. Taipale. 2013. Transcription factor binding in human cells occurs in dense clusters formed around cohesin anchor sites. Cell. 154:801-813. http://dx.doi.org/10.1016/j.cell.2013.07.034
-
(2013)
Cell
, vol.154
, pp. 801-813
-
-
Yan, J.1
Enge, M.2
Whitington, T.3
Dave, K.4
Liu, J.5
Sur, I.6
Schmierer, B.7
Jolma, A.8
Kivioja, T.9
Taipale, M.10
Taipale, J.11
-
65
-
-
84887117736
-
The landscape of somatic mutations in Down syndrome-related myeloid disorders
-
Yoshida, K., T. Toki, Y. Okuno, R. Kanezaki, Y. Shiraishi, A. Sato-Otsubo, M. Sanada, M.J. Park, K. Terui, H. Suzuki, et al. 2013. The landscape of somatic mutations in Down syndrome-related myeloid disorders. Nat. Genet. 45:1293-1299. http://dx.doi.org/10.1038/ng.2759
-
(2013)
Nat. Genet.
, vol.45
, pp. 1293-1299
-
-
Yoshida, K.1
Toki, T.2
Okuno, Y.3
Kanezaki, R.4
Shiraishi, Y.5
Sato-Otsubo, A.6
Sanada, M.7
Park, M.J.8
Terui, K.9
Suzuki, H.10
-
66
-
-
84880047697
-
Characterization of the interaction between the cohesin subunits Rad21 and SA1/2
-
Zhang, N., Y. Jiang, Q. Mao, B. Demeler, Y.J. Tao, and D. Pati. 2013. Characterization of the interaction between the cohesin subunits Rad21 and SA1/2. PLoS ONE. 8:e69458. http://dx.doi.org/10.1371/journal .pone.0069458
-
(2013)
PLoS ONE
, vol.8
, pp. e69458
-
-
Zhang, N.1
Jiang, Y.2
Mao, Q.3
Demeler, B.4
Tao, Y.J.5
Pati, D.6
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