-
1
-
-
78650994865
-
The three-dimensional folding of the alpha-globin gene domain reveals formation of chromatin globules
-
Bau D, Sanyal A, Lajoie BR, Capriotti E, Byron M, Lawrence JB, Dekker J, Marti-Renom MA (2011) The three-dimensional folding of the alpha-globin gene domain reveals formation of chromatin globules. Nat Struct Mol Biol 18: 107-114.
-
(2011)
Nat Struct Mol Biol
, vol.18
, pp. 107-114
-
-
Bau, D.1
Sanyal, A.2
Lajoie, B.R.3
Capriotti, E.4
Byron, M.5
Lawrence, J.B.6
Dekker, J.7
Marti-Renom, M.A.8
-
2
-
-
62549146697
-
An insulator element 3' to the CFTR gene binds CTCF and reveals an active chromatin hub in primary cells
-
Blackledge NP, Ott CJ, Gillen AE, Harris A (2009) An insulator element 3' to the CFTR gene binds CTCF and reveals an active chromatin hub in primary cells. Nucleic Acids Res 37: 1086-1094.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 1086-1094
-
-
Blackledge, N.P.1
Ott, C.J.2
Gillen, A.E.3
Harris, A.4
-
3
-
-
84925656065
-
Epigenomic Networking in drug development: from pathogenic mechanisms to pharmacogenomics
-
Cacabelos R (2014) Epigenomic Networking in drug development: from pathogenic mechanisms to pharmacogenomics. Drug Develop Res 75: 348-365.
-
(2014)
Drug Develop Res
, vol.75
, pp. 348-365
-
-
Cacabelos, R.1
-
4
-
-
0036898580
-
Longrange chromatin regulatory interactions in vivo
-
Carter D, Chakalova L, Osborne CS, Dai YF, Fraser P (2002) Longrange chromatin regulatory interactions in vivo. Nature Genet 32: 623-626.
-
(2002)
Nature Genet
, vol.32
, pp. 623-626
-
-
Carter, D.1
Chakalova, L.2
Osborne, C.S.3
Dai, Y.F.4
Fraser, P.5
-
6
-
-
84855363144
-
Long-range DNA looping and gene expression analyses identify DEXI as an autoimmune disease candidate gene
-
Davison LJ, Wallace C, Cooper JD, Cope NF, Wilson NK, Smyth DJ, Howson JMM, Saleh N, Al.-Jeffery A, Angus KL, Stevens HE, Nutland S, Duley S, Coulson RMR, Walker NM, Burren OS, Rice CM, Cambien F, Zeller T, Munzel T, Lackner K, Blankenberg S, The Cardiogenics Consortium, Fraser P, Gottgens B, Todd JA (2012) Long-range DNA looping and gene expression analyses identify DEXI as an autoimmune disease candidate gene. Hum Mol Genet 21: 322-333.
-
(2012)
Hum Mol Genet
, vol.21
, pp. 322-333
-
-
Davison, L.J.1
Wallace, C.2
Cooper, J.D.3
Cope, N.F.4
Wilson, N.K.5
Smyth, D.J.6
Howson, J.M.M.7
Saleh, N.8
Al-Jeffery, A.9
Angus, K.L.10
Stevens, H.E.11
Nutland, S.12
Duley, S.13
Coulson, R.M.R.14
Walker, N.M.15
Burren, O.S.16
Rice, C.M.17
Cambien, F.18
Zeller, T.19
Munzel, T.20
Lackner, K.21
Blankenberg, S.22
Fraser, P.23
Gottgens, B.24
Todd, J.A.25
more..
-
8
-
-
5444268559
-
Differential large-scale chromatin compaction and intranuclear positioning of transcribed versus non-transcribed transgene arrays containing betaglobin regulatory sequences
-
Dietzel S, Zolghadr K, Hepperger C, Belmont AS (2004) Differential large-scale chromatin compaction and intranuclear positioning of transcribed versus non-transcribed transgene arrays containing betaglobin regulatory sequences. J Cell Sci 117: 4603-4614.
-
(2004)
J Cell Sci
, vol.117
, pp. 4603-4614
-
-
Dietzel, S.1
Zolghadr, K.2
Hepperger, C.3
Belmont, A.S.4
-
9
-
-
33749400168
-
Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements
-
Dostie J, Richmond TA, Arnaout RA, Selzer RR, Lee WL, Honan TA, Rubio ED, Krumm A, Lamb J, Nusbaum C, Green RD, Dekker J (2006) Chromosome Conformation Capture Carbon Copy (5C): a massively parallel solution for mapping interactions between genomic elements. Genome Res 16: 1299-1309.
-
(2006)
Genome Res
, vol.16
, pp. 1299-1309
-
-
Dostie, J.1
Richmond, T.A.2
Arnaout, R.A.3
Selzer, R.R.4
Lee, W.L.5
Honan, T.A.6
Rubio, E.D.7
Krumm, A.8
Lamb, J.9
Nusbaum, C.10
Green, R.D.11
Dekker, J.12
-
10
-
-
84866978035
-
Three-dimensional genome architecture influences partner selection for chromosomal translocations in human disease
-
Engreitz JM, Agarwala V, Mirny LA (2012) Three-dimensional genome architecture influences partner selection for chromosomal translocations in human disease. PloS One 7: e44196.
-
(2012)
PloS One
, vol.7
-
-
Engreitz, J.M.1
Agarwala, V.2
Mirny, L.A.3
-
11
-
-
70449103609
-
An oestrogenreceptor-alpha-bound human chromatin interactome
-
Fullwood MJ, Liu MH, Pan YF, Liu J, Xu H, Mohamed YB, Orlov YL, Velkov S, Ho A, Mei PH, Chew EG, Huang PY, Welboren WJ, Han Y, Ooi HS, Ariyaratne PN, Vega VB, Luo Y, Tan PY, Choy PY, Wansa KD, Zhao B, Lim KS, Leow SC, Yow JS, Joseph R, Li H, Desai KV, Thomsen JS, Lee YK, Karuturi RK, Herve T, Bourque G, Stunnenberg HG, Ruan X, Cacheux-Rataboul V, Sung WK, Liu ET, Wei CL, Cheung E, Ruan Y (2009) An oestrogenreceptor-alpha-bound human chromatin interactome. Nature 462: 58-64.
-
(2009)
Nature
, vol.462
, pp. 58-64
-
-
Fullwood, M.J.1
Liu, M.H.2
Pan, Y.F.3
Liu, J.4
Xu, H.5
Mohamed, Y.B.6
Orlov, Y.L.7
Velkov, S.8
Ho, A.9
Mei, P.H.10
Chew, E.G.11
Huang, P.Y.12
Welboren, W.J.13
Han, Y.14
Ooi, H.S.15
Ariyaratne, P.N.16
Vega, V.B.17
Luo, Y.18
Tan, P.Y.19
Choy, P.Y.20
Wansa, K.D.21
Zhao, B.22
Lim, K.S.23
Leow, S.C.24
Yow, J.S.25
Joseph, R.26
Li, H.27
Desai, K.V.28
Thomsen, J.S.29
Lee, Y.K.30
Karuturi, R.K.31
Herve, T.32
Bourque, G.33
Stunnenberg, H.G.34
Ruan, X.35
Cacheux-Rataboul, V.36
Sung, W.K.37
Liu, E.T.38
Wei, C.L.39
Cheung, E.40
Ruan, Y.41
more..
-
13
-
-
34548565667
-
Quantitative analysis of chromosome conformation capture assays (3C-qPCR)
-
Hagege H, Klous P, Braem C, Splinter E, Dekker J, Cathala G, de Laat W, Forne T (2007) Quantitative analysis of chromosome conformation capture assays (3C-qPCR). Nature Protocols 2: 1722-1733.
-
(2007)
Nature Protocols
, vol.2
, pp. 1722-1733
-
-
Hagege, H.1
Klous, P.2
Braem, C.3
Splinter, E.4
Dekker, J.5
Cathala, G.6
de Laat, W.7
Forne, T.8
-
14
-
-
84895832107
-
Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment
-
Hughes JR, Roberts N, McGowan S, Hay D, Giannoulatou E, Lynch M, De Gobbi M, Taylor S, Gibbons R, Higgs DR (2014) Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment. Nature Genet 46: 205-212.
-
(2014)
Nature Genet
, vol.46
, pp. 205-212
-
-
Hughes, J.R.1
Roberts, N.2
McGowan, S.3
Hay, D.4
Giannoulatou, E.5
Lynch, M.6
De Gobbi, M.7
Taylor, S.8
Gibbons, R.9
Higgs, D.R.10
-
16
-
-
84904412804
-
Targeted Chromatin Capture (T2C): a novel high resolution high throughput method to detect genomic interactions and regulatory elements
-
Kolovos P, van de Werken HJ, Kepper N, Zuin J, Brouwer RW, Kockx CE, Wendt KS, van IJcken WF, Grosveld F, Knoch TA (2014) Targeted Chromatin Capture (T2C): a novel high resolution high throughput method to detect genomic interactions and regulatory elements. Epigenetics & Chromatin 7:10.
-
(2014)
Epigenetics & Chromatin
, vol.7
, pp. 10
-
-
Kolovos, P.1
van de Werken, H.J.2
Kepper, N.3
Zuin, J.4
Brouwer, R.W.5
Kockx, C.E.6
Wendt, K.S.7
van, I.8
Jcken, W.F.9
Grosveld, F.10
Knoch, T.A.11
-
17
-
-
84900005381
-
The PPARgamma locus makes long-range chromatin interactions with selected tissue-specific gene loci during adipocyte differentiation in a protein kinase A dependent manner
-
LeBlanc SE, Wu Q, Barutcu AR, Xiao H, Ohkawa Y, Imbalzano AN (2014) The PPARgamma locus makes long-range chromatin interactions with selected tissue-specific gene loci during adipocyte differentiation in a protein kinase A dependent manner. PloS One 9: e86140.
-
(2014)
PloS One
, vol.9
-
-
LeBlanc, S.E.1
Wu, Q.2
Barutcu, A.R.3
Xiao, H.4
Ohkawa, Y.5
Imbalzano, A.N.6
-
18
-
-
70349873824
-
Comprehensive mapping of long-range interactions reveals folding principles of the human genome
-
Lieberman-Aiden E, van Berkum NL, Williams L, Imakaev M, Ragoczy T, Telling A, Amit I, Lajoie BR, Sabo PJ, Dorschner MO, Sand-strom R, Bernstein B, Bender MA, Groudine M, Gnirke A, Stamatoyannopoulos J, Mirny LA, Lander ES, Dekker J (2009) Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science 326: 289-2893.
-
(2009)
Science
, vol.326
, pp. 289-2893
-
-
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
Sand-strom, R.11
Bernstein, B.12
Bender, M.A.13
Groudine, M.14
Gnirke, A.15
Stamatoyannopoulos, J.16
Mirny, L.A.17
Lander, E.S.18
Dekker, J.19
-
19
-
-
13844312670
-
Rounding up active cis-elements in the triple C corral: combining conservation, cleavage and conformation capture for the analysis of regulatory gene domains
-
McBride DJ, Kleinjan DA (2004) Rounding up active cis-elements in the triple C corral: combining conservation, cleavage and conformation capture for the analysis of regulatory gene domains. Briefings Funct Genom Proteom 3: 267-279.
-
(2004)
Briefings Funct Genom Proteom
, vol.3
, pp. 267-279
-
-
McBride, D.J.1
Kleinjan, D.A.2
-
20
-
-
60349092237
-
Mapping cis-and trans-chromatin interaction networks using chromosome conformation capture (3C)
-
Miele A, Dekker J (2009) Mapping cis-and trans-chromatin interaction networks using chromosome conformation capture (3C). Methods Mol Biol 464: 105-121.
-
(2009)
Methods Mol Biol
, vol.464
, pp. 105-121
-
-
Miele, A.1
Dekker, J.2
-
21
-
-
73949111636
-
Intronic enhancers coordinate epithelialspecific looping of the active CFTR locus
-
Ott CJ, Blackledge NP, Kerschner JL, Leir SH, Crawford GE, Cotton CU, Harris A (2009) Intronic enhancers coordinate epithelialspecific looping of the active CFTR locus. Proc Natl Acad Sci USA 106: 19934-19939.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 19934-19939
-
-
Ott, C.J.1
Blackledge, N.P.2
Kerschner, J.L.3
Leir, S.H.4
Crawford, G.E.5
Cotton, C.U.6
Harris, A.7
-
23
-
-
0141730403
-
The beta-globin nuclear compartment in development and erythroid differentiation
-
Palstra RJ, Tolhuis B, Splinter E, Nijmeijer R, Grosveld F, de Laat W (2003) The beta-globin nuclear compartment in development and erythroid differentiation. Nature Genet 35: 190-194.
-
(2003)
Nature Genet
, vol.35
, pp. 190-194
-
-
Palstra, R.J.1
Tolhuis, B.2
Splinter, E.3
Nijmeijer, R.4
Grosveld, F.5
de Laat, W.6
-
25
-
-
84887936807
-
The links between chromatin spatial organization and biological function
-
Rodriguez A, Bjerling P (2013) The links between chromatin spatial organization and biological function. Biochem Soc Trans 41: 1634-1639.
-
(2013)
Biochem Soc Trans
, vol.41
, pp. 1634-1639
-
-
Rodriguez, A.1
Bjerling, P.2
-
26
-
-
84899652185
-
Classifying leukemia types with chromatin conformation data
-
Rousseau M, Ferraiuolo MA, Crutchley JL, Wang XQ, Miura H, Blanchette M, Dostie J (2014) Classifying leukemia types with chromatin conformation data. Genome Biol 15: R60.
-
(2014)
Genome Biol
, vol.15
, pp. R60
-
-
Rousseau, M.1
Ferraiuolo, M.A.2
Crutchley, J.L.3
Wang, X.Q.4
Miura, H.5
Blanchette, M.6
Dostie, J.7
-
27
-
-
84885965887
-
Chromatin loop organization of the junb locus in mouse dendritic cells
-
Salem T, Gomard T, Court F, Moquet-Torcy G, Brockly F, Forne T, Piechaczyk M (2013) Chromatin loop organization of the junb locus in mouse dendritic cells. Nucleic Acids Res 41: 8908-8925.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. 8908-8925
-
-
Salem, T.1
Gomard, T.2
Court, F.3
Moquet-Torcy, G.4
Brockly, F.5
Forne, T.6
Piechaczyk, M.7
-
28
-
-
70349326007
-
Genomic interactions: Chromatin loops and gene meeting points in transcriptional regulation
-
Sexton T, Bantignies F, Cavalli G (2009) Genomic interactions: Chromatin loops and gene meeting points in transcriptional regulation. Semin Cell Dev Biol 20: 849-855.
-
(2009)
Semin Cell Dev Biol
, vol.20
, pp. 849-855
-
-
Sexton, T.1
Bantignies, F.2
Cavalli, G.3
-
29
-
-
33750212321
-
Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C)
-
Simonis M, Klous P, Splinter E, Moshkin Y, Willemsen R, de Wit E, van Steensel B, Wet L (2006) Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C). Nature Genet 38: 1348-1354.
-
(2006)
Nature Genet
, vol.38
, pp. 1348-1354
-
-
Simonis, M.1
Klous, P.2
Splinter, E.3
Moshkin, Y.4
Willemsen, R.5
de Wit, E.6
van Steensel, B.7
Wet, L.8
-
30
-
-
84891828630
-
Chromosome conformation capture-on-chip analysis of long-range cis-interactions of the SOX9 promoter
-
Smyk M, Szafranski P, Startek M, Gambin A, Stankiewicz P (2013) Chromosome conformation capture-on-chip analysis of long-range cis-interactions of the SOX9 promoter. Chromosome research: an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology. 21: 781-788.
-
(2013)
Chromosome research: an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology
, vol.21
, pp. 781-788
-
-
Smyk, M.1
Szafranski, P.2
Startek, M.3
Gambin, A.4
Stankiewicz, P.5
-
31
-
-
80455143728
-
The complex transcription regulatory landscape of our genome: control in three dimensions
-
Splinter E, de Laat W (2011) The complex transcription regulatory landscape of our genome: control in three dimensions. EMBO J 30: 4345-4355.
-
(2011)
EMBO J
, vol.30
, pp. 4345-4355
-
-
Splinter, E.1
de Laat, W.2
-
32
-
-
33748259774
-
CTCF mediates long-range chromatin looping and local histone modification in the beta-globin locus
-
Splinter E, Heath H, Kooren J, Palstra RJ, Klous P, Grosveld F, Galjart N, de Laat W (2006) CTCF mediates long-range chromatin looping and local histone modification in the beta-globin locus. Genes Develop 20: 2349-2354.
-
(2006)
Genes Develop
, vol.20
, pp. 2349-2354
-
-
Splinter, E.1
Heath, H.2
Kooren, J.3
Palstra, R.J.4
Klous, P.5
Grosveld, F.6
Galjart, N.7
de Laat, W.8
-
33
-
-
0036923833
-
Looping and interaction between hypersensitive sites in the active betaglobin locus
-
Tolhuis B, Palstra RJ, Splinter E, Grosveld F, de Laat W (2002) Looping and interaction between hypersensitive sites in the active betaglobin locus. Mol Cell 10: 1453-1465.
-
(2002)
Mol Cell
, vol.10
, pp. 1453-1465
-
-
Tolhuis, B.1
Palstra, R.J.2
Splinter, E.3
Grosveld, F.4
de Laat, W.5
-
34
-
-
79953748673
-
A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression
-
Wang KC, Yang YW, Liu B, Sanyal A, Corces-Zimmerman R, Chen Y, Lajoie BR, Protacio A, Flynn RA, Gupta RA, Wysocka J, Lei M, Dekker J, Helms JA, Chang HY (2011) A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression. Nature 472: 120-124.
-
(2011)
Nature
, vol.472
, pp. 120-124
-
-
Wang, K.C.1
Yang, Y.W.2
Liu, B.3
Sanyal, A.4
Corces-Zimmerman, R.5
Chen, Y.6
Lajoie, B.R.7
Protacio, A.8
Flynn, R.A.9
Gupta, R.A.10
Wysocka, J.11
Lei, M.12
Dekker, J.13
Helms, J.A.14
Chang, H.Y.15
-
35
-
-
84884692054
-
An enhancer element harboring variants associated with systemic lupus erythematosus engages the TNFAIP3 promoter to influence A20 expression
-
Wang S, Wen F, Wiley GB, Kinter MT, Gaffney PM (2013) An enhancer element harboring variants associated with systemic lupus erythematosus engages the TNFAIP3 promoter to influence A20 expression. PLoS Genetics 9: e1003750.
-
(2013)
PLoS Genetics
, vol.9
-
-
Wang, S.1
Wen, F.2
Wiley, G.B.3
Kinter, M.T.4
Gaffney, P.M.5
-
36
-
-
0033080794
-
Chromatin disruption and modification
-
Wolffe AP, Hayes JJ (1999) Chromatin disruption and modification. Nucleic Acids Res 27: 711-720.
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 711-720
-
-
Wolffe, A.P.1
Hayes, J.J.2
-
37
-
-
0029129565
-
Evidence for the organization of chromatin in megabase pair-sized loops arranged along a random walk path in the human G0/G1 interphase nucleus
-
Yokota H, van den Engh G, Hearst JE, Sachs RK, Trask BJ (1995) Evidence for the organization of chromatin in megabase pair-sized loops arranged along a random walk path in the human G0/G1 interphase nucleus. J Cell Biol 130: 1239-1249.
-
(1995)
J Cell Biol
, vol.130
, pp. 1239-1249
-
-
Yokota, H.1
van den Engh, G.2
Hearst, J.E.3
Sachs, R.K.4
Trask, B.J.5
-
38
-
-
84883315768
-
Genomic interaction profiles in breast cancer reveal altered chromatin architecture
-
Zeitz MJ, Ay F, Heidmann JD, Lerner PL, Noble WS, Steelman BN, Hoffman AR (2013) Genomic interaction profiles in breast cancer reveal altered chromatin architecture. PloS One 8: e73974.
-
(2013)
PloS One
, vol.8
-
-
Zeitz, M.J.1
Ay, F.2
Heidmann, J.D.3
Lerner, P.L.4
Noble, W.S.5
Steelman, B.N.6
Hoffman, A.R.7
-
39
-
-
84861534368
-
Molecular mechanisms controlling CFTR gene expression in the airway
-
Zhang Z, Ott CJ, Lewandowska MA, Leir SH, Harris A (2012) Molecular mechanisms controlling CFTR gene expression in the airway. J Cell Mol Med 16: 1321-3130.
-
(2012)
J Cell Mol Med
, vol.16
, pp. 1321-3130
-
-
Zhang, Z.1
Ott, C.J.2
Lewandowska, M.A.3
Leir, S.H.4
Harris, A.5
-
40
-
-
33750203582
-
Circular chromosome conformation capture (4C) uncovers extensive networks of epigenetically regulated intra-and interchromosomal interactions
-
Zhao Z, Tavoosidana G, Sjolinder M, Gondor A, Mariano P, Wang S Kanduri C, Lezcano M, Sandhu KS, Singh U, Pant V, Tiwari V, Kurukuti S, Ohlsson R (2006) Circular chromosome conformation capture (4C) uncovers extensive networks of epigenetically regulated intra-and interchromosomal interactions. Nature Genet 38: 1341-1347.
-
(2006)
Nature Genet
, vol.38
, pp. 1341-1347
-
-
Zhao, Z.1
Tavoosidana, G.2
Sjolinder, M.3
Gondor, A.4
Mariano, P.5
Wang, S.6
Kanduri, C.7
Lezcano, M.8
Sandhu, K.S.9
Singh, U.10
Pant, V.11
Tiwari, V.12
Kurukuti, S.13
Ohlsson, R.14
|