-
1
-
-
67650997080
-
Cohesins form chromosomal cis-interactions at the developmentally regulated IFNG locus
-
Hadjur, S., et al. Cohesins form chromosomal cis-interactions at the developmentally regulated IFNG locus. Nature 460, 410-413 (2009).
-
(2009)
Nature
, vol.460
, pp. 410-413
-
-
Hadjur, S.1
-
2
-
-
73649145481
-
Cohesin is required for higher-order chromatin conformation at the imprinted IGF2-H19 locus
-
Nativio, R., et al. Cohesin is required for higher-order chromatin conformation at the imprinted IGF2-H19 locus. PLoS Genet. 5, e1000739 (2009).
-
(2009)
PLoS Genet.
, vol.5
, pp. e1000739
-
-
Nativio, R.1
-
3
-
-
84861095603
-
Topological domains in mammalian genomes identified by analysis of chromatin interactions
-
Dixon, J. R., et al. Topological domains in mammalian genomes identified by analysis of chromatin interactions. Nature 485, 376-380 (2012).
-
(2012)
Nature
, vol.485
, pp. 376-380
-
-
Dixon, J.R.1
-
4
-
-
84892934183
-
Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells
-
Zuin, J., et al. Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells. Proc. Natl Acad. Sci. USA 111, 996-1001 (2014).
-
(2014)
Proc. Natl Acad. Sci. USA
, vol.111
, pp. 996-1001
-
-
Zuin, J.1
-
5
-
-
84890566970
-
Cohesin-mediated interactions organize chromosomal domain architecture
-
Sofueva, S., et al. Cohesin-mediated interactions organize chromosomal domain architecture. EMBO J. 32, 3119-3129 (2013).
-
(2013)
EMBO J.
, vol.32
, pp. 3119-3129
-
-
Sofueva, S.1
-
6
-
-
84919949716
-
A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping
-
Rao, S. S. P., et al. A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping. Cell 159, 1665-1680 (2014).
-
(2014)
Cell
, vol.159
, pp. 1665-1680
-
-
Rao, S.S.P.1
-
7
-
-
80052042965
-
A role for cohesin in T-cell-receptor rearrangement and thymocyte differentiation
-
Seitan, V. C., et al. A role for cohesin in T-cell-receptor rearrangement and thymocyte differentiation. Nature 476, 467-471 (2011).
-
(2011)
Nature
, vol.476
, pp. 467-471
-
-
Seitan, V.C.1
-
8
-
-
80053130223
-
CTCF-binding elements mediate control of V(D) J recombination
-
Guo, C., et al. CTCF-binding elements mediate control of V(D)J recombination. Nature 477, 424-430 (2011).
-
(2011)
Nature
, vol.477
, pp. 424-430
-
-
Guo, C.1
-
9
-
-
84882616986
-
Flexible long-range loops in the VH gene region of the Igh locus facilitate the generation of a diverse antibody repertoire
-
Medvedovic, J., et al. Flexible long-range loops in the VH gene region of the Igh locus facilitate the generation of a diverse antibody repertoire. Immunity 39, 229-244 (2013).
-
(2013)
Immunity
, vol.39
, pp. 229-244
-
-
Medvedovic, J.1
-
10
-
-
33947201809
-
Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome
-
Kim, T. H., et al. Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome. Cell 128, 1231-1245 (2007).
-
(2007)
Cell
, vol.128
, pp. 1231-1245
-
-
Kim, T.H.1
-
11
-
-
84878860751
-
Architectural protein subclasses shape 3D organization of genomes during lineage commitment
-
Phillips-Cremins, J. E., et al. Architectural protein subclasses shape 3D organization of genomes during lineage commitment. Cell 153, 1281-1295 (2013).
-
(2013)
Cell
, vol.153
, pp. 1281-1295
-
-
Phillips-Cremins, J.E.1
-
12
-
-
38849121606
-
Cohesins functionally associate with CTCF on mammalian chromosome arms
-
Parelho, V., et al. Cohesins functionally associate with CTCF on mammalian chromosome arms. Cell 132, 422-433 (2008).
-
(2008)
Cell
, vol.132
, pp. 422-433
-
-
Parelho, V.1
-
13
-
-
39149121436
-
Cohesin mediates transcriptional insulation by CCCTCbinding factor
-
Wendt, K. S., et al. Cohesin mediates transcriptional insulation by CCCTCbinding factor. Nature 451, 796-801 (2008).
-
(2008)
Nature
, vol.451
, pp. 796-801
-
-
Wendt, K.S.1
-
14
-
-
77957139539
-
Mediator and cohesin connect gene expression and chromatin architecture
-
Kagey, M. H., et al. Mediator and cohesin connect gene expression and chromatin architecture. Nature 467, 430-435 (2010).
-
(2010)
Nature
, vol.467
, pp. 430-435
-
-
Kagey, M.H.1
-
15
-
-
84901735084
-
A cohesin-independent role for NIPBL at promoters provides insights in CdLS
-
Zuin, J., et al. A cohesin-independent role for NIPBL at promoters provides insights in CdLS. PLoS Genet. 10, e1004153 (2014).
-
(2014)
PLoS Genet.
, vol.10
, pp. e1004153
-
-
Zuin, J.1
-
16
-
-
0035678054
-
Disseminating the genome: Joining, resolving, and separating sister chromatids during mitosis and meiosis
-
Nasmyth, K. Disseminating the genome: joining, resolving, and separating sister chromatids during mitosis and meiosis. Annu. Rev. Genet. 35, 673-745 (2001).
-
(2001)
Annu. Rev. Genet.
, vol.35
, pp. 673-745
-
-
Nasmyth, K.1
-
17
-
-
84939240549
-
A CTCF code for 3D genome architecture
-
Nichols, M. H., & Corces, V. G. A CTCF code for 3D genome architecture. Cell 162, 703-705 (2015).
-
(2015)
Cell
, vol.162
, pp. 703-705
-
-
Nichols, M.H.1
Corces, V.G.2
-
18
-
-
84948403758
-
Chromatin extrusion explains key features of loop and domain formation in wild-Type and engineered genomes
-
Sanborn, A. L., et al. Chromatin extrusion explains key features of loop and domain formation in wild-Type and engineered genomes. Proc. Natl Acad. Sci. USA 112, E6456-E6465 (2015).
-
(2015)
Proc. Natl Acad. Sci. USA
, vol.112
, pp. E6456-E6465
-
-
Sanborn, A.L.1
-
19
-
-
84971324235
-
Formation of chromosomal domains by loop extrusion
-
Fudenberg, G., et al. Formation of chromosomal domains by loop extrusion. Cell Reports 15, 2038-2049 (2016).
-
(2016)
Cell Reports
, vol.15
, pp. 2038-2049
-
-
Fudenberg, G.1
-
20
-
-
19344366459
-
Genome-wide mapping of the cohesin complex in the yeast Saccharomyces cerevisiae
-
Glynn, E. F., et al. Genome-wide mapping of the cohesin complex in the yeast Saccharomyces cerevisiae. PLoS Biol. 2, E259 (2004).
-
(2004)
PLoS Biol.
, vol.2
, pp. E259
-
-
Glynn, E.F.1
-
21
-
-
3242880374
-
Cohesin relocation from sites of chromosomal loading to places of convergent transcription
-
Lengronne, A., et al. Cohesin relocation from sites of chromosomal loading to places of convergent transcription. Nature 430, 573-578 (2004).
-
(2004)
Nature
, vol.430
, pp. 573-578
-
-
Lengronne, A.1
-
22
-
-
84950298816
-
Biological chromodynamics: A general method for measuring protein occupancy across the genome by calibrating ChIP-seq
-
Hu, B., et al. Biological chromodynamics: a general method for measuring protein occupancy across the genome by calibrating ChIP-seq. Nucleic Acids Res. 43, e132 (2015).
-
(2015)
Nucleic Acids Res.
, vol.43
, pp. e132
-
-
Hu, B.1
-
23
-
-
40749094018
-
Cohesin complex promotes transcriptional termination between convergent genes in S pombe
-
Gullerova, M., & Proudfoot, N. J. Cohesin complex promotes transcriptional termination between convergent genes in S. pombe. Cell 132, 983-995 (2008).
-
(2008)
Cell
, vol.132
, pp. 983-995
-
-
Gullerova, M.1
Proudfoot, N.J.2
-
24
-
-
55549092726
-
CTCF regulates cell cycle progression of a b T cells in the thymus
-
Heath, H., et al. CTCF regulates cell cycle progression of a b T cells in the thymus. EMBO J. 27, 2839-2850 (2008).
-
(2008)
EMBO J.
, vol.27
, pp. 2839-2850
-
-
Heath, H.1
-
25
-
-
84885592677
-
Wapl is an essential regulator of chromatin structure and chromosome segregation
-
Tedeschi, A., et al. Wapl is an essential regulator of chromatin structure and chromosome segregation. Nature 501, 564-568 (2013).
-
(2013)
Nature
, vol.501
, pp. 564-568
-
-
Tedeschi, A.1
-
26
-
-
84864147148
-
The B-cell identity factor Pax5 regulates distinct transcriptional programmes in early and late B lymphopoiesis
-
Revilla-i-Domingo, R., et al. The B-cell identity factor Pax5 regulates distinct transcriptional programmes in early and late B lymphopoiesis. EMBO J. 31, 3130-3146 (2012).
-
(2012)
EMBO J.
, vol.31
, pp. 3130-3146
-
-
Revilla, I.1
Domingo, R.2
-
27
-
-
84876010302
-
Genome-wide control of RNA polymerase II activity by cohesin
-
Schaaf, C. A., et al. Genome-wide control of RNA polymerase II activity by cohesin. PLoS Genet. 9, e1003382 (2013).
-
(2013)
PLoS Genet.
, vol.9
, pp. e1003382
-
-
Schaaf, C.A.1
-
28
-
-
84925840671
-
Germline gain-of-function mutations in AFF4 cause a developmental syndrome functionally linking the super elongation complex and cohesin
-
Izumi, K., et al. Germline gain-of-function mutations in AFF4 cause a developmental syndrome functionally linking the super elongation complex and cohesin. Nature Genet. 47, 338-344 (2015).
-
(2015)
Nature Genet.
, vol.47
, pp. 338-344
-
-
Izumi, K.1
-
29
-
-
84997281764
-
Rapid movement and transcriptional re-localization of human cohesin on DNA
-
Davidson, I. F., et al. Rapid movement and transcriptional re-localization of human cohesin on DNA. EMBO J. 35, 2671-2685 (2016).
-
(2016)
EMBO J.
, vol.35
, pp. 2671-2685
-
-
Davidson, I.F.1
-
30
-
-
84963971171
-
Single-molecule imaging reveals a collapsed conformational state for DNA-bound cohesin
-
Stigler, J., Camdere, G. O Koshland, D. E., & Greene, E. C. Single-molecule imaging reveals a collapsed conformational state for DNA-bound cohesin. Cell Reports 15, 988-998 (2016).
-
(2016)
Cell Reports
, vol.15
, pp. 988-998
-
-
Stigler, J.1
Camdere, G.O.2
Koshland, D.E.3
Greene, E.C.4
-
31
-
-
79251530771
-
Sororin mediates sister chromatid cohesion by antagonizing Wapl
-
Nishiyama, T., et al. Sororin mediates sister chromatid cohesion by antagonizing Wapl. Cell 143, 737-749 (2010).
-
(2010)
Cell
, vol.143
, pp. 737-749
-
-
Nishiyama, T.1
-
32
-
-
0032497566
-
Cohesion between sister chromatids must be established during DNA replication
-
Uhlmann, F., & Nasmyth, K. Cohesion between sister chromatids must be established during DNA replication. Curr. Biol. 8, 1095-1101 (1998).
-
(1998)
Curr. Biol.
, vol.8
, pp. 1095-1101
-
-
Uhlmann, F.1
Nasmyth, K.2
-
33
-
-
78349291580
-
Rec8-containing cohesin maintains bivalents without turnover during the growing phase of mouse oocytes
-
Tachibana-Konwalski, K., et al. Rec8-containing cohesin maintains bivalents without turnover during the growing phase of mouse oocytes. Genes Dev. 24, 2505-2516 (2010).
-
(2010)
Genes Dev.
, vol.24
, pp. 2505-2516
-
-
Tachibana-Konwalski, K.1
-
34
-
-
0037441645
-
Rapid generation of inducible mouse mutants
-
Seibler, J., et al. Rapid generation of inducible mouse mutants. Nucleic Acids Res. 31, e12 (2003).
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. e12
-
-
Seibler, J.1
-
35
-
-
0034041160
-
High-efficiency deleter mice show that FLPe is an alternative to Cre-loxP
-
Rodríguez, C. I., et al. High-efficiency deleter mice show that FLPe is an alternative to Cre-loxP. Nature Genet. 25, 139-140 (2000).
-
(2000)
Nature Genet.
, vol.25
, pp. 139-140
-
-
Rodríguez, C.I.1
-
37
-
-
57849109058
-
Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters
-
Core, L. J., Waterfall, J. J., & Lis, J. T. Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters. Science 322, 1845-1848 (2008).
-
(2008)
Science
, vol.322
, pp. 1845-1848
-
-
Core, L.J.1
Waterfall, J.J.2
Lis, J.T.3
-
38
-
-
62349130698
-
Ultrafast and memoryefficient alignment of short DNA sequences to the human genome
-
Langmead, B., Trapnell, C., Pop, M., & Salzberg, S. L. Ultrafast and memoryefficient alignment of short DNA sequences to the human genome. Genome Biol. 10, R25 (2009).
-
(2009)
Genome Biol.
, vol.10
, pp. R25
-
-
Langmead, B.1
Trapnell, C.2
Pop, M.3
Salzberg, S.L.4
-
39
-
-
65449136284
-
TopHat: Discovering splice junctions with RNA-seq
-
Trapnell, C., Pachter, L., & Salzberg, S. L. TopHat: discovering splice junctions with RNA-seq. Bioinformatics 25, 1105-1111 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 1105-1111
-
-
Trapnell, C.1
Pachter, L.2
Salzberg, S.L.3
-
40
-
-
77958471357
-
Differential expression analysis for sequence count data
-
Anders, S., & Huber, W. Differential expression analysis for sequence count data. Genome Biol. 11, R106 (2010).
-
(2010)
Genome Biol.
, vol.11
, pp. R106
-
-
Anders, S.1
Huber, W.2
-
41
-
-
75249087100
-
EdgeR: A Bioconductor package for differential expression analysis of digital gene expression data
-
Robinson, M. D., McCarthy, D. J., & Smyth, G. K. edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26, 139-140 (2010).
-
(2010)
Bioinformatics
, vol.26
, pp. 139-140
-
-
Robinson, M.D.1
McCarthy, D.J.2
Smyth, G.K.3
-
42
-
-
84858041341
-
Differential expression analysis of multifactor RNA-seq experiments with respect to biological variation
-
McCarthy, D. J., Chen, Y., & Smyth, G. K. Differential expression analysis of multifactor RNA-seq experiments with respect to biological variation. Nucleic Acids Res. 40, 4288-4297 (2012).
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 4288-4297
-
-
McCarthy, D.J.1
Chen, Y.2
Smyth, G.K.3
-
43
-
-
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 57, 289-300 (1995).
-
(1995)
J. R. Stat. Soc.
, vol.B57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
44
-
-
53849146020
-
Model-based analysis of ChIP-seq (MACS)
-
Zhang, Y., et al. Model-based analysis of ChIP-seq (MACS). Genome Biol. 9, R137 (2008).
-
(2008)
Genome Biol.
, vol.9
, pp. R137
-
-
Zhang, Y.1
-
45
-
-
77951770756
-
BEDTools: A flexible suite of utilities for comparing genomic features
-
Quinlan, A. R., & Hall, I. M. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26, 841-842 (2010).
-
(2010)
Bioinformatics
, vol.26
, pp. 841-842
-
-
Quinlan, A.R.1
Hall, I.M.2
-
46
-
-
84870830152
-
Multovl: Fast multiple overlaps of genomic regions
-
Aszódi, A. MULTOVL: fast multiple overlaps of genomic regions. Bioinformatics 28, 3318-3319 (2012).
-
(2012)
Bioinformatics
, vol.28
, pp. 3318-3319
-
-
Aszódi, A.1
-
47
-
-
70349871718
-
CEAS: Cis-regulatory element annotation system
-
Shin, H., Liu, T., Manrai, A. K., & Liu, X. S. CEAS: cis-regulatory element annotation system. Bioinformatics 25, 2605-2606 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 2605-2606
-
-
Shin, H.1
Liu, T.2
Manrai, A.K.3
Liu, X.S.4
-
48
-
-
79958117256
-
MEME-ChIP: Motif analysis of large DNA datasets
-
Machanick, P., & Bailey, T. L. MEME-ChIP: motif analysis of large DNA datasets. Bioinformatics 27, 1696-1697 (2011).
-
(2011)
Bioinformatics
, vol.27
, pp. 1696-1697
-
-
Machanick, P.1
Bailey, T.L.2
-
49
-
-
33751237384
-
Wapl controls the dynamic association of cohesin with chromatin
-
Kueng, S., et al. Wapl controls the dynamic association of cohesin with chromatin. Cell 127, 955-967 (2006).
-
(2006)
Cell
, vol.127
, pp. 955-967
-
-
Kueng, S.1
-
50
-
-
84990201713
-
Drosophila TDP-43 RNA-binding protein facilitates association of sister chromatid cohesion proteins with genes, enhancers and polycomb response elements
-
Swain, A., et al. Drosophila TDP-43 RNA-binding protein facilitates association of sister chromatid cohesion proteins with genes, enhancers and polycomb response elements. PLoS Genet. 12, e1006331 (2016).
-
(2016)
PLoS Genet.
, vol.12
, pp. e1006331
-
-
Swain, A.1
|