-
1
-
-
84878754528
-
A switch between topological domains underlies HoxD genes collinearity in mouse limbs
-
PID: 23744951
-
Andrey G et al (2013) A switch between topological domains underlies HoxD genes collinearity in mouse limbs. Science 340:1234167. doi:10.1126/science.1234167
-
(2013)
Science
, vol.340
, pp. 1234167
-
-
Andrey, G.1
-
2
-
-
84887852466
-
Genome-wide chromatin interactions of the Nanog locus in pluripotency, differentiation, and reprogramming
-
COI: 1:CAS:528:DC%2BC3sXnsVygtbo%3D, PID: 23665121
-
Apostolou E et al (2013) Genome-wide chromatin interactions of the Nanog locus in pluripotency, differentiation, and reprogramming. Cell Stem Cell 12:699–712. doi:10.1016/j.stem.2013.04.013
-
(2013)
Cell Stem Cell
, vol.12
, pp. 699-712
-
-
Apostolou, E.1
-
3
-
-
78651514974
-
Polycomb-dependent regulatory contacts between distant Hox loci in Drosophila
-
COI: 1:CAS:528:DC%2BC3MXntVansw%3D%3D, PID: 21241892
-
Bantignies F et al (2011) Polycomb-dependent regulatory contacts between distant Hox loci in Drosophila. Cell 144:214–226. doi:10.1016/j.cell.2010.12.026
-
(2011)
Cell
, vol.144
, pp. 214-226
-
-
Bantignies, F.1
-
4
-
-
0037058969
-
Mitotic chromosome scaffold structure: new approaches to an old controversy
-
COI: 1:CAS:528:DC%2BD38Xps1egtb8%3D, PID: 12461163
-
Belmont AS (2002) Mitotic chromosome scaffold structure: new approaches to an old controversy. Proc Natl Acad Sci U S A 99:15855–15857. doi:10.1073/pnas.262672799
-
(2002)
Proc Natl Acad Sci U S A
, vol.99
, pp. 15855-15857
-
-
Belmont, A.S.1
-
5
-
-
33646729244
-
Intermingling of chromosome territories in interphase suggests role in translocations and transcription-dependent associations
-
PID: 16623600
-
Branco MR, Pombo A (2006) Intermingling of chromosome territories in interphase suggests role in translocations and transcription-dependent associations. PLoS Biol 4:e138. doi:10.1371/journal.pbio.0040138
-
(2006)
PLoS Biol
, vol.4
-
-
Branco, M.R.1
Pombo, A.2
-
6
-
-
84938293069
-
A matter of scale: how emerging technologies are redefining our view of chromosome architecture
-
COI: 1:CAS:528:DC%2BC2MXhtVWru7vM, PID: 26113398
-
Cattoni DI, Valeri A, Le Gall A, Nollmann M (2015) A matter of scale: how emerging technologies are redefining our view of chromosome architecture. Trends Genet 31:454–464. doi:10.1016/j.tig.2015.05.011
-
(2015)
Trends Genet
, vol.31
, pp. 454-464
-
-
Cattoni, D.I.1
Valeri, A.2
Le Gall, A.3
Nollmann, M.4
-
7
-
-
84875200698
-
Functional implications of genome topology
-
COI: 1:CAS:528:DC%2BC3sXjsFOrsro%3D, PID: 23463314
-
Cavalli G, Misteli T (2013) Functional implications of genome topology. Nat Struct Mol Biol 20:290–299. doi:10.1038/nsmb.2474
-
(2013)
Nat Struct Mol Biol
, vol.20
, pp. 290-299
-
-
Cavalli, G.1
Misteli, T.2
-
8
-
-
79952294070
-
A chromatin insulator driving three-dimensional Polycomb response element (PRE) contacts and Polycomb association with the chromatin fiber
-
COI: 1:CAS:528:DC%2BC3MXitFKqtbw%3D, PID: 21262819
-
Comet I, Schuettengruber B, Sexton T, Cavalli G (2011) A chromatin insulator driving three-dimensional Polycomb response element (PRE) contacts and Polycomb association with the chromatin fiber. Proc Natl Acad Sci U S A 108:2294–2299. doi:10.1073/pnas.1002059108
-
(2011)
Proc Natl Acad Sci U S A
, vol.108
, pp. 2294-2299
-
-
Comet, I.1
Schuettengruber, B.2
Sexton, T.3
Cavalli, G.4
-
9
-
-
0020062161
-
Induction of chromosome damage by ultraviolet light and caffeine: correlation of cytogenetic evaluation and flow karyotype
-
COI: 1:CAS:528:DyaL38XitFegtro%3D, PID: 7075394
-
Cremer C, Cremer T, Gray JW (1982) Induction of chromosome damage by ultraviolet light and caffeine: correlation of cytogenetic evaluation and flow karyotype. Cytometry 2:287–290. doi:10.1002/cyto.990020504
-
(1982)
Cytometry
, vol.2
, pp. 287-290
-
-
Cremer, C.1
Cremer, T.2
Gray, J.W.3
-
10
-
-
0041885232
-
Inheritance of gene density-related higher order chromatin arrangements in normal and tumor cell nuclei
-
COI: 1:CAS:528:DC%2BD3sXntFeqsLo%3D, PID: 12952935
-
Cremer M et al (2003) Inheritance of gene density-related higher order chromatin arrangements in normal and tumor cell nuclei. J Cell Biol 162:809–820. doi:10.1083/jcb.200304096
-
(2003)
J Cell Biol
, vol.162
, pp. 809-820
-
-
Cremer, M.1
-
11
-
-
33847775659
-
Rise, fall and resurrection of chromosome territories: a historical perspective. Part II. Fall and resurrection of chromosome territories during the 1950s to 1980s. Part III. Chromosome territories and the functional nuclear architecture: experiments and models from the 1990s to the present
-
COI: 1:STN:280:DC%2BD2s%2Fhs12qtA%3D%3D, PID: 17213034
-
Cremer T, Cremer C (2006) Rise, fall and resurrection of chromosome territories: a historical perspective. Part II. Fall and resurrection of chromosome territories during the 1950s to 1980s. Part III. Chromosome territories and the functional nuclear architecture: experiments and models from the 1990s to the present. Eur J Histochem 50:223–272
-
(2006)
Eur J Histochem
, vol.50
, pp. 223-272
-
-
Cremer, T.1
Cremer, C.2
-
12
-
-
0033553877
-
Differences in the localization and morphology of chromosomes in the human nucleus
-
COI: 1:CAS:528:DyaK1MXjvVKitbY%3D, PID: 10366586
-
Croft JA, Bridger JM, Boyle S, Perry P, Teague P, Bickmore WA (1999) Differences in the localization and morphology of chromosomes in the human nucleus. J Cell Biol 145:1119–1131
-
(1999)
J Cell Biol
, vol.145
, pp. 1119-1131
-
-
Croft, J.A.1
Bridger, J.M.2
Boyle, S.3
Perry, P.4
Teague, P.5
Bickmore, W.A.6
-
13
-
-
31344477982
-
The three ‘C’ s of chromosome conformation capture: controls, controls, controls
-
COI: 1:CAS:528:DC%2BD2MXhtlagurrO, PID: 16369547
-
Dekker J (2006) The three ‘C’ s of chromosome conformation capture: controls, controls, controls. Nat Methods 3:17–21. doi:10.1038/nmeth823
-
(2006)
Nat Methods
, vol.3
, pp. 17-21
-
-
Dekker, J.1
-
14
-
-
0037083376
-
Capturing chromosome conformation
-
COI: 1:CAS:528:DC%2BD38XhsVGhsbk%3D, PID: 11847345
-
Dekker J, Rippe K, Dekker M, Kleckner N (2002) Capturing chromosome conformation. Science 295:1306–1311. doi:10.1126/science.1067799
-
(2002)
Science
, vol.295
, pp. 1306-1311
-
-
Dekker, J.1
Rippe, K.2
Dekker, M.3
Kleckner, N.4
-
15
-
-
84861095603
-
Topological domains in mammalian genomes identified by analysis of chromatin interactions
-
COI: 1:CAS:528:DC%2BC38XlslShurw%3D, PID: 22495300
-
Dixon JR et al (2012) Topological domains in mammalian genomes identified by analysis of chromatin interactions. Nature 485:376–380. doi:10.1038/nature11082
-
(2012)
Nature
, vol.485
, pp. 376-380
-
-
Dixon, J.R.1
-
16
-
-
33749400168
-
Chromosome conformation capture carbon copy (5C): a massively parallel solution for mapping interactions between genomic elements
-
COI: 1:CAS:528:DC%2BD28XhtVOmtrbK, PID: 16954542
-
Dostie J et al (2006) Chromosome conformation capture carbon copy (5C): a massively parallel solution for mapping interactions between genomic elements. Genome Res 16:1299–1309. doi:10.1101/gr.5571506
-
(2006)
Genome Res
, vol.16
, pp. 1299-1309
-
-
Dostie, J.1
-
17
-
-
84923823453
-
Unbiased analysis of potential targets of breast cancer susceptibility loci by Capture Hi-C
-
COI: 1:CAS:528:DC%2BC2cXhvFWqs7fK, PID: 25122612
-
Dryden NH et al (2014) Unbiased analysis of potential targets of breast cancer susceptibility loci by Capture Hi-C. Genome Res 24:1854–1868. doi:10.1101/gr.175034.114
-
(2014)
Genome Res
, vol.24
, pp. 1854-1868
-
-
Dryden, N.H.1
-
18
-
-
84870331824
-
A genome-wide 3C-method for characterizing the three-dimensional architectures of genomes
-
COI: 1:CAS:528:DC%2BC38XhtVOqtrfI, PID: 22776363
-
Duan Z et al (2012) A genome-wide 3C-method for characterizing the three-dimensional architectures of genomes. Methods 58:277–288. doi:10.1016/j.ymeth.2012.06.018
-
(2012)
Methods
, vol.58
, pp. 277-288
-
-
Duan, Z.1
-
19
-
-
84870310396
-
From cells to chromatin: capturing snapshots of genome organization with 5C technology
-
COI: 1:CAS:528:DC%2BC38XhslSmu7bM, PID: 23137922
-
Ferraiuolo MA, Sanyal A, Naumova N, Dekker J, Dostie J (2012) From cells to chromatin: capturing snapshots of genome organization with 5C technology. Methods 58:255–267. doi:10.1016/j.ymeth.2012.10.011
-
(2012)
Methods
, vol.58
, pp. 255-267
-
-
Ferraiuolo, M.A.1
Sanyal, A.2
Naumova, N.3
Dekker, J.4
Dostie, J.5
-
20
-
-
65149100263
-
Chromatin conformation signatures of cellular differentiation
-
PID: 19374771
-
Fraser J, Rousseau M, Shenker S, Ferraiuolo MA, Hayashizaki Y, Blanchette M, Dostie J (2009) Chromatin conformation signatures of cellular differentiation. Genome Biol 10:R37. doi:10.1186/gb-2009-10-4-r37
-
(2009)
Genome Biol
, vol.10
, pp. R37
-
-
Fraser, J.1
Rousseau, M.2
Shenker, S.3
Ferraiuolo, M.A.4
Hayashizaki, Y.5
Blanchette, M.6
Dostie, J.7
-
21
-
-
70449103609
-
An oestrogen-receptor-alpha-bound human chromatin interactome
-
COI: 1:CAS:528:DC%2BD1MXhtlKkt7fM, PID: 19890323
-
Fullwood MJ et al (2009) An oestrogen-receptor-alpha-bound human chromatin interactome. Nature 462:58–64. doi:10.1038/nature08497
-
(2009)
Nature
, vol.462
, pp. 58-64
-
-
Fullwood, M.J.1
-
22
-
-
0345169047
-
The centennial of the Cajal body
-
COI: 1:CAS:528:DC%2BD3sXpvFChtrc%3D, PID: 14685175
-
Gall JG (2003) The centennial of the Cajal body. Nat Rev Mol Cell Biol 4:975–980. doi:10.1038/nrm1262
-
(2003)
Nat Rev Mol Cell Biol
, vol.4
, pp. 975-980
-
-
Gall, J.G.1
-
23
-
-
84875464666
-
Actual ligation frequencies in the chromosome conformation capture procedure
-
COI: 1:CAS:528:DC%2BC3sXlslCgs7s%3D, PID: 23555968
-
Gavrilov AA, Golov AK, Razin SV (2013a) Actual ligation frequencies in the chromosome conformation capture procedure. PLoS One 8:e60403. doi:10.1371/journal.pone.0060403
-
(2013)
PLoS One
, vol.8
-
-
Gavrilov, A.A.1
Golov, A.K.2
Razin, S.V.3
-
24
-
-
84875463382
-
Disclosure of a structural milieu for the proximity ligation reveals the elusive nature of an active chromatin hub
-
COI: 1:CAS:528:DC%2BC3sXlsVCnu78%3D, PID: 23396278
-
Gavrilov AA, Gushchanskaya ES, Strelkova O, Zhironkina O, Kireev II, Iarovaia OV, Razin SV (2013b) Disclosure of a structural milieu for the proximity ligation reveals the elusive nature of an active chromatin hub. Nucleic Acids Res 41:3563–3575. doi:10.1093/nar/gkt067
-
(2013)
Nucleic Acids Res
, vol.41
, pp. 3563-3575
-
-
Gavrilov, A.A.1
Gushchanskaya, E.S.2
Strelkova, O.3
Zhironkina, O.4
Kireev, I.I.5
Iarovaia, O.V.6
Razin, S.V.7
-
25
-
-
84905593782
-
Enhancer loops appear stable during development and are associated with paused polymerase
-
COI: 1:CAS:528:DC%2BC2cXht12ms77L, PID: 25043061
-
Ghavi-Helm Y, Klein FA, Pakozdi T, Ciglar L, Noordermeer D, Huber W, Furlong EE (2014) Enhancer loops appear stable during development and are associated with paused polymerase. Nature 512:96–100. doi:10.1038/nature13417
-
(2014)
Nature
, vol.512
, pp. 96-100
-
-
Ghavi-Helm, Y.1
Klein, F.A.2
Pakozdi, T.3
Ciglar, L.4
Noordermeer, D.5
Huber, W.6
Furlong, E.E.7
-
26
-
-
84887932087
-
Characterization of chromosomal architecture in Arabidopsis by chromosome conformation capture
-
PID: 24267747
-
Grob S, Schmid MW, Luedtke NW, Wicker T, Grossniklaus U (2013) Characterization of chromosomal architecture in Arabidopsis by chromosome conformation capture. Genome Biol 14:R129. doi:10.1186/gb-2013-14-11-r129
-
(2013)
Genome Biol
, vol.14
, pp. R129
-
-
Grob, S.1
Schmid, M.W.2
Luedtke, N.W.3
Wicker, T.4
Grossniklaus, U.5
-
27
-
-
34548565667
-
Quantitative analysis of chromosome conformation capture assays (3C-qPCR)
-
COI: 1:CAS:528:DC%2BD2sXhtFahur%2FF, PID: 17641637
-
Hagege H et al (2007) Quantitative analysis of chromosome conformation capture assays (3C-qPCR). Nat Protoc 2:1722–1733. doi:10.1038/nprot.2007.243
-
(2007)
Nat Protoc
, vol.2
, pp. 1722-1733
-
-
Hagege, H.1
-
28
-
-
79959699992
-
CTCF-mediated functional chromatin interactome in pluripotent cells
-
COI: 1:CAS:528:DC%2BC3MXnslSltL0%3D, PID: 21685913
-
Handoko L et al (2011) CTCF-mediated functional chromatin interactome in pluripotent cells. Nat Genet 43:630–638. doi:10.1038/ng.857
-
(2011)
Nat Genet
, vol.43
, pp. 630-638
-
-
Handoko, L.1
-
29
-
-
0000251397
-
Das Heterochromatin der Moose
-
Heitz E (1928) Das Heterochromatin der Moose. Jahrb Wiss Botanik 69:762–818
-
(1928)
Jahrb Wiss Botanik
, vol.69
, pp. 762-818
-
-
Heitz, E.1
-
30
-
-
11244328520
-
Loss of silent-chromatin looping and impaired imprinting of DLX5 in Rett syndrome
-
COI: 1:CAS:528:DC%2BD2cXhtFChsLzL, PID: 15608638
-
Horike S, Cai S, Miyano M, Cheng JF, Kohwi-Shigematsu T (2005) Loss of silent-chromatin looping and impaired imprinting of DLX5 in Rett syndrome. Nat Genet 37:31–40. doi:10.1038/ng1491
-
(2005)
Nat Genet
, vol.37
, pp. 31-40
-
-
Horike, S.1
Cai, S.2
Miyano, M.3
Cheng, J.F.4
Kohwi-Shigematsu, T.5
-
31
-
-
84934435162
-
Mapping nucleosome resolution chromosome folding in yeast by Micro-C
-
COI: 1:CAS:528:DC%2BC2MXhtV2itbrN, PID: 26119342
-
Hsieh TH, Weiner A, Lajoie B, Dekker J, Friedman N, Rando OJ (2015) Mapping nucleosome resolution chromosome folding in yeast by Micro-C. Cell 162:108–119. doi:10.1016/j.cell.2015.05.048
-
(2015)
Cell
, vol.162
, pp. 108-119
-
-
Hsieh, T.H.1
Weiner, A.2
Lajoie, B.3
Dekker, J.4
Friedman, N.5
Rando, O.J.6
-
32
-
-
84895832107
-
Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment
-
COI: 1:CAS:528:DC%2BC2cXmtVelsA%3D%3D, PID: 24413732
-
Hughes JR et al (2014) Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment. Nat Genet 46:205–212. doi:10.1038/ng.2871
-
(2014)
Nat Genet
, vol.46
, pp. 205-212
-
-
Hughes, J.R.1
-
33
-
-
84866997011
-
Iterative correction of Hi-C data reveals hallmarks of chromosome organization
-
COI: 1:CAS:528:DC%2BC38Xht1ynt7jK, PID: 22941365
-
Imakaev M et al (2012) Iterative correction of Hi-C data reveals hallmarks of chromosome organization. Nat Methods 9:999–1003. doi:10.1038/nmeth.2148
-
(2012)
Nat Methods
, vol.9
, pp. 999-1003
-
-
Imakaev, M.1
-
34
-
-
84923378921
-
Capture Hi-C identifies the chromatin interactome of colorectal cancer risk loci
-
COI: 1:CAS:528:DC%2BC2MXosVCktbc%3D, PID: 25695508
-
Jager R et al (2015) Capture Hi-C identifies the chromatin interactome of colorectal cancer risk loci. Nat Commun 6:6178. doi:10.1038/ncomms7178
-
(2015)
Nat Commun
, vol.6
, pp. 6178
-
-
Jager, R.1
-
35
-
-
84887620842
-
A high-resolution map of the three-dimensional chromatin interactome in human cells
-
COI: 1:CAS:528:DC%2BC3sXhslSnsLfK, PID: 24141950
-
Jin F et al (2013) A high-resolution map of the three-dimensional chromatin interactome in human cells. Nature 503:290–294. doi:10.1038/nature12644
-
(2013)
Nature
, vol.503
, pp. 290-294
-
-
Jin, F.1
-
36
-
-
84862917808
-
Genome architectures revealed by tethered chromosome conformation capture and population-based modeling
-
COI: 1:CAS:528:DC%2BC3MXhs1OltbbN
-
Kalhor R, Tjong H, Jayathilaka N, Alber F, Chen L (2012) Genome architectures revealed by tethered chromosome conformation capture and population-based modeling. Nat Biotechnol 30:90–98. doi:10.1038/nbt.2057
-
(2012)
Nat Biotechnol
, vol.30
, pp. 90-98
-
-
Kalhor, R.1
Tjong, H.2
Jayathilaka, N.3
Alber, F.4
Chen, L.5
-
37
-
-
84904412804
-
Targeted chromatin capture (T2C): a novel high resolution high throughput method to detect genomic interactions and regulatory elements
-
PID: 25031611
-
Kolovos P et al (2014) Targeted chromatin capture (T2C): a novel high resolution high throughput method to detect genomic interactions and regulatory elements. Epigenetics Chromatin 7:10. doi:10.1186/1756-8935-7-10
-
(2014)
Epigenetics Chromatin
, vol.7
, pp. 10
-
-
Kolovos, P.1
-
38
-
-
70349625401
-
My5C: web tools for chromosome conformation capture studies
-
COI: 1:CAS:528:DC%2BD1MXhtF2kurjE, PID: 19789528
-
Lajoie BR, van Berkum NL, Sanyal A, Dekker J (2009) My5C: web tools for chromosome conformation capture studies. Nat Methods 6:690–691. doi:10.1038/nmeth1009-690
-
(2009)
Nat Methods
, vol.6
, pp. 690-691
-
-
Lajoie, B.R.1
van Berkum, N.L.2
Sanyal, A.3
Dekker, J.4
-
39
-
-
84887322004
-
High-resolution mapping of the spatial organization of a bacterial chromosome
-
COI: 1:CAS:528:DC%2BC3sXhslWlsLrP, PID: 24158908
-
Le TB, Imakaev MV, Mirny LA, Laub MT (2013) High-resolution mapping of the spatial organization of a bacterial chromosome. Science 342:731–734. doi:10.1126/science.1242059
-
(2013)
Science
, vol.342
, pp. 731-734
-
-
Le, T.B.1
Imakaev, M.V.2
Mirny, L.A.3
Laub, M.T.4
-
40
-
-
70349873824
-
Comprehensive mapping of long-range interactions reveals folding principles of the human genome
-
COI: 1:CAS:528:DC%2BD1MXht1agsbjM, PID: 19815776
-
Lieberman-Aiden E et al (2009) Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science 326:289–293. doi:10.1126/science.1181369
-
(2009)
Science
, vol.326
, pp. 289-293
-
-
Lieberman-Aiden, E.1
-
41
-
-
33746228114
-
Interchromosomal interactions and olfactory receptor choice
-
COI: 1:CAS:528:DC%2BD28Xot1OntLk%3D, PID: 16873069
-
Lomvardas S, Barnea G, Pisapia DJ, Mendelsohn M, Kirkland J, Axel R (2006) Interchromosomal interactions and olfactory receptor choice. Cell 126:403–413. doi:10.1016/j.cell.2006.06.035
-
(2006)
Cell
, vol.126
, pp. 403-413
-
-
Lomvardas, S.1
Barnea, G.2
Pisapia, D.J.3
Mendelsohn, M.4
Kirkland, J.5
Axel, R.6
-
42
-
-
84926177361
-
Fine-scale chromatin interaction maps reveal the cis-regulatory landscape of human lincRNA genes
-
PID: 25437436
-
Ma W et al (2015) Fine-scale chromatin interaction maps reveal the cis-regulatory landscape of human lincRNA genes. Nat Methods 12:71–78. doi:10.1038/nmeth.3205
-
(2015)
Nat Methods
, vol.12
, pp. 71-78
-
-
Ma, W.1
-
43
-
-
84939550260
-
Condensin- and replication-mediated bacterial chromosome folding and origin condensation revealed by Hi-C and super-resolution imaging
-
COI: 1:CAS:528:DC%2BC2MXhtlymtLvI, PID: 26295962
-
Marbouty M et al (2015) Condensin- and replication-mediated bacterial chromosome folding and origin condensation revealed by Hi-C and super-resolution imaging. Mol Cell 59:588–602. doi:10.1016/j.molcel.2015.07.020
-
(2015)
Mol Cell
, vol.59
, pp. 588-602
-
-
Marbouty, M.1
-
44
-
-
84865822182
-
Systematic localization of common disease-associated variation in regulatory DNA
-
COI: 1:CAS:528:DC%2BC38Xht1ylsLfL, PID: 22955828
-
Maurano MT et al (2012) Systematic localization of common disease-associated variation in regulatory DNA. Science 337:1190–1195. doi:10.1126/science.1222794
-
(2012)
Science
, vol.337
, pp. 1190-1195
-
-
Maurano, M.T.1
-
45
-
-
84873349707
-
Correlated alterations in genome organization, histone methylation, and DNA-lamin A/C interactions in Hutchinson-Gilford progeria syndrome
-
COI: 1:CAS:528:DC%2BC3sXitVemt7o%3D, PID: 23152449
-
McCord RP et al (2013) Correlated alterations in genome organization, histone methylation, and DNA-lamin A/C interactions in Hutchinson-Gilford progeria syndrome. Genome Res 23:260–269. doi:10.1101/gr.138032.112
-
(2013)
Genome Res
, vol.23
, pp. 260-269
-
-
McCord, R.P.1
-
46
-
-
84930092058
-
Mapping long-range promoter contacts in human cells with high-resolution capture Hi-C
-
COI: 1:CAS:528:DC%2BC2MXht1Wltb%2FL, PID: 25938943
-
Mifsud B et al (2015) Mapping long-range promoter contacts in human cells with high-resolution capture Hi-C. Nat Genet 47:598–606. doi:10.1038/ng.3286
-
(2015)
Nat Genet
, vol.47
, pp. 598-606
-
-
Mifsud, B.1
-
47
-
-
78349288865
-
Higher-order genome organization in human disease
-
PID: 20591991
-
Misteli T (2010) Higher-order genome organization in human disease. Cold Spring Harb Perspect Biol 2:a000794. doi:10.1101/cshperspect.a000794
-
(2010)
Cold Spring Harb Perspect Biol
, vol.2
, pp. a000794
-
-
Misteli, T.1
-
48
-
-
84885617426
-
Single-cell Hi-C reveals cell-to-cell variability in chromosome structure
-
COI: 1:CAS:528:DC%2BC3sXhsFaksbvN, PID: 24067610
-
Nagano T et al (2013) Single-cell Hi-C reveals cell-to-cell variability in chromosome structure. Nature 502:59–64. doi:10.1038/nature12593
-
(2013)
Nature
, vol.502
, pp. 59-64
-
-
Nagano, T.1
-
49
-
-
84940023613
-
Comparison of Hi-C results using in-solution versus in-nucleus ligation
-
PID: 26306623
-
Nagano T, Varnai C, Schoenfelder S, Javierre BM, Wingett SW, Fraser P (2015) Comparison of Hi-C results using in-solution versus in-nucleus ligation. Genome Biol 16:175. doi:10.1186/s13059-015-0753-7
-
(2015)
Genome Biol
, vol.16
, pp. 175
-
-
Nagano, T.1
Varnai, C.2
Schoenfelder, S.3
Javierre, B.M.4
Wingett, S.W.5
Fraser, P.6
-
50
-
-
84888018217
-
Organization of the mitotic chromosome
-
COI: 1:CAS:528:DC%2BC3sXhsl2htLvP, PID: 24200812
-
Naumova N, Imakaev M, Fudenberg G, Zhan Y, Lajoie BR, Mirny LA, Dekker J (2013) Organization of the mitotic chromosome. Science 342:948–953. doi:10.1126/science.1236083
-
(2013)
Science
, vol.342
, pp. 948-953
-
-
Naumova, N.1
Imakaev, M.2
Fudenberg, G.3
Zhan, Y.4
Lajoie, B.R.5
Mirny, L.A.6
Dekker, J.7
-
51
-
-
84861100147
-
Spatial partitioning of the regulatory landscape of the X-inactivation centre
-
COI: 1:CAS:528:DC%2BC38XlslSisrw%3D, PID: 22495304
-
Nora EP et al (2012) Spatial partitioning of the regulatory landscape of the X-inactivation centre. Nature 485:381–385. doi:10.1038/nature11049
-
(2012)
Nature
, vol.485
, pp. 381-385
-
-
Nora, E.P.1
-
52
-
-
84878860751
-
Architectural protein subclasses shape 3D organization of genomes during lineage commitment
-
COI: 1:CAS:528:DC%2BC3sXotlCrtrs%3D, PID: 23706625
-
Phillips-Cremins JE et al (2013) Architectural protein subclasses shape 3D organization of genomes during lineage commitment. Cell 153:1281–1295. doi:10.1016/j.cell.2013.04.053
-
(2013)
Cell
, vol.153
, pp. 1281-1295
-
-
Phillips-Cremins, J.E.1
-
53
-
-
84911478490
-
Topologically associating domains are stable units of replication-timing regulation
-
COI: 1:CAS:528:DC%2BC2cXhvFGlt7rP, PID: 25409831
-
Pope BD et al (2014) Topologically associating domains are stable units of replication-timing regulation. Nature 515:402–405. doi:10.1038/nature13986
-
(2014)
Nature
, vol.515
, pp. 402-405
-
-
Pope, B.D.1
-
54
-
-
84919949716
-
A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping
-
COI: 1:CAS:528:DC%2BC2cXitFCrtrrK, PID: 25497547
-
Rao SS et al (2014) A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping. Cell 159:1665–1680. doi:10.1016/j.cell.2014.11.021
-
(2014)
Cell
, vol.159
, pp. 1665-1680
-
-
Rao, S.S.1
-
55
-
-
84894280394
-
Hox in motion: tracking HoxA cluster conformation during differentiation
-
COI: 1:CAS:528:DC%2BC2cXisFKksbc%3D, PID: 24174538
-
Rousseau M, Crutchley JL, Miura H, Suderman M, Blanchette M, Dostie J (2014a) Hox in motion: tracking HoxA cluster conformation during differentiation. Nucleic Acids Res 42:1524–1540. doi:10.1093/nar/gkt998
-
(2014)
Nucleic Acids Res
, vol.42
, pp. 1524-1540
-
-
Rousseau, M.1
Crutchley, J.L.2
Miura, H.3
Suderman, M.4
Blanchette, M.5
Dostie, J.6
-
56
-
-
84899652185
-
Classifying leukemia types with chromatin conformation data
-
PID: 24995990
-
Rousseau M, Ferraiuolo MA, Crutchley JL, Wang XQ, Miura H, Blanchette M, Dostie J (2014b) Classifying leukemia types with chromatin conformation data. Genome Biol 15:R60. doi:10.1186/gb-2014-15-4-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
-
57
-
-
84940034154
-
Genome-wide mapping of promoter-anchored interactions with close to single-enhancer resolution
-
PID: 26313521
-
Sahlen P et al (2015) Genome-wide mapping of promoter-anchored interactions with close to single-enhancer resolution. Genome Biol 16:156. doi:10.1186/s13059-015-0727-9
-
(2015)
Genome Biol
, vol.16
, pp. 156
-
-
Sahlen, P.1
-
58
-
-
84870404918
-
Large-scale functional organization of long-range chromatin interaction networks
-
COI: 1:CAS:528:DC%2BC38XhvVWnsrbL, PID: 23103170
-
Sandhu KS et al (2012) Large-scale functional organization of long-range chromatin interaction networks. Cell Rep 2:1207–1219. doi:10.1016/j.celrep.2012.09.022
-
(2012)
Cell Rep
, vol.2
, pp. 1207-1219
-
-
Sandhu, K.S.1
-
59
-
-
84927763931
-
The pluripotent regulatory circuitry connecting promoters to their long-range interacting elements
-
COI: 1:CAS:528:DC%2BC2MXmvFCgu7c%3D, PID: 25752748
-
Schoenfelder S et al (2015) The pluripotent regulatory circuitry connecting promoters to their long-range interacting elements. Genome Res 25:582–597. doi:10.1101/gr.185272.114
-
(2015)
Genome Res
, vol.25
, pp. 582-597
-
-
Schoenfelder, S.1
-
60
-
-
73349090560
-
Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells
-
COI: 1:CAS:528:DC%2BD1MXhsFGjtrjI, PID: 20010836
-
Schoenfelder S et al (2010) Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells. Nat Genet 42:53–61. doi:10.1038/ng.496
-
(2010)
Nat Genet
, vol.42
, pp. 53-61
-
-
Schoenfelder, S.1
-
61
-
-
84924875394
-
The role of chromosome domains in shaping the functional genome
-
COI: 1:CAS:528:DC%2BC2MXks1agtbg%3D, PID: 25768903
-
Sexton T, Cavalli G (2015) The role of chromosome domains in shaping the functional genome. Cell 160:1049–1059. doi:10.1016/j.cell.2015.02.040
-
(2015)
Cell
, vol.160
, pp. 1049-1059
-
-
Sexton, T.1
Cavalli, G.2
-
62
-
-
84856747483
-
Three-dimensional folding and functional organization principles of the Drosophila genome
-
COI: 1:CAS:528:DC%2BC38XhvFehsLo%3D, PID: 22265598
-
Sexton T et al (2012) Three-dimensional folding and functional organization principles of the Drosophila genome. Cell 148:458–472. doi:10.1016/j.cell.2012.01.010
-
(2012)
Cell
, vol.148
, pp. 458-472
-
-
Sexton, T.1
-
63
-
-
33750212321
-
Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C)
-
COI: 1:CAS:528:DC%2BD28XhtFeisbvF, PID: 17033623
-
Simonis M et al (2006) Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C). Nat Genet 38:1348–1354. doi:10.1038/ng1896
-
(2006)
Nat Genet
, vol.38
, pp. 1348-1354
-
-
Simonis, M.1
-
64
-
-
84951567954
-
CTCF-mediated human 3D genome architecture reveals chromatin topology for transcription
-
COI: 1:CAS:528:DC%2BC2MXitVSksb7F, PID: 26686651
-
Tang Z et al (2015) CTCF-mediated human 3D genome architecture reveals chromatin topology for transcription. Cell 163:1611–1627. doi:10.1016/j.cell.2015.11.024
-
(2015)
Cell
, vol.163
, pp. 1611-1627
-
-
Tang, Z.1
-
65
-
-
46449119367
-
A novel 6C assay uncovers Polycomb-mediated higher order chromatin conformations
-
COI: 1:CAS:528:DC%2BD1cXotlKmtrY%3D, PID: 18502945
-
Tiwari VK, Cope L, McGarvey KM, Ohm JE, Baylin SB (2008) A novel 6C assay uncovers Polycomb-mediated higher order chromatin conformations. Genome Res 18:1171–1179. doi:10.1101/gr.073452.107
-
(2008)
Genome Res
, vol.18
, pp. 1171-1179
-
-
Tiwari, V.K.1
Cope, L.2
McGarvey, K.M.3
Ohm, J.E.4
Baylin, S.B.5
-
66
-
-
0037369324
-
Human stem cells as targets for the aging and diseases of aging processes
-
PID: 12581626
-
Trosko JE (2003) Human stem cells as targets for the aging and diseases of aging processes. Med Hypotheses 60:439–447. doi:10.1016/s0306-9877(02)00446-2
-
(2003)
Med Hypotheses
, vol.60
, pp. 439-447
-
-
Trosko, J.E.1
-
67
-
-
81255146230
-
The three-dimensional architecture of a bacterial genome and its alteration by genetic perturbation
-
COI: 1:CAS:528:DC%2BC3MXhtlKisb7I, PID: 22017872
-
Umbarger MA et al (2011) The three-dimensional architecture of a bacterial genome and its alteration by genetic perturbation. Mol Cell 44:252–264. doi:10.1016/j.molcel.2011.09.010
-
(2011)
Mol Cell
, vol.44
, pp. 252-264
-
-
Umbarger, M.A.1
-
68
-
-
84865502890
-
4C technology: protocols and data analysis
-
PID: 22929766
-
van de Werken HJ, de Vree PJ, Splinter E, Holwerda SJ, Klous P, de Wit E, de Laat W (2012a) 4C technology: protocols and data analysis. Methods Enzymol 513:89–112. doi:10.1016/B978-0-12-391938-0.00004-5
-
(2012)
Methods Enzymol
, vol.513
, pp. 89-112
-
-
van de Werken, H.J.1
de Vree, P.J.2
Splinter, E.3
Holwerda, S.J.4
Klous, P.5
de Wit, E.6
de Laat, W.7
-
69
-
-
84867003195
-
Robust 4C-seq data analysis to screen for regulatory DNA interactions
-
PID: 22961246
-
van de Werken HJ et al (2012b) Robust 4C-seq data analysis to screen for regulatory DNA interactions. Nat Methods 9:969–972. doi:10.1038/nmeth.2173
-
(2012)
Nat Methods
, vol.9
, pp. 969-972
-
-
van de Werken, H.J.1
-
70
-
-
84924533047
-
Comparative Hi-C reveals that CTCF underlies evolution of chromosomal domain architecture
-
COI: 1:CAS:528:DC%2BC2MXjs1Omt7s%3D, PID: 25732821
-
Vietri Rudan M, Barrington C, Henderson S, Ernst C, Odom DT, Tanay A, Hadjur S (2015) Comparative Hi-C reveals that CTCF underlies evolution of chromosomal domain architecture. Cell Rep 10:1297–1309. doi:10.1016/j.celrep.2015.02.004
-
(2015)
Cell Rep
, vol.10
, pp. 1297-1309
-
-
Vietri Rudan, M.1
Barrington, C.2
Henderson, S.3
Ernst, C.4
Odom, D.T.5
Tanay, A.6
Hadjur, S.7
-
71
-
-
84911384951
-
Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data
-
COI: 1:CAS:528:DC%2BC28XhtFOrtb7M, PID: 25078398
-
Walter C, Schuetzmann D, Rosenbauer F, Dugas M (2014) Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data. Bioinformatics 30:3268–3269. doi:10.1093/bioinformatics/btu497
-
(2014)
Bioinformatics
, vol.30
, pp. 3268-3269
-
-
Walter, C.1
Schuetzmann, D.2
Rosenbauer, F.3
Dugas, M.4
-
72
-
-
79953748673
-
A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression
-
COI: 1:CAS:528:DC%2BC3MXjsVKrsro%3D, PID: 21423168
-
Wang KC et al (2011) A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression. Nature 472:120–124. doi:10.1038/nature09819
-
(2011)
Nature
, vol.472
, pp. 120-124
-
-
Wang, K.C.1
-
73
-
-
84918510740
-
Spatial genome organization: contrasting views from chromosome conformation capture and fluorescence in situ hybridization
-
PID: 25512564
-
Williamson I et al (2014) Spatial genome organization: contrasting views from chromosome conformation capture and fluorescence in situ hybridization. Genes Dev 28:2778–2791. doi:10.1101/gad.251694.114
-
(2014)
Genes Dev
, vol.28
, pp. 2778-2791
-
-
Williamson, I.1
-
74
-
-
33745743206
-
Genome-wide scanning of HoxB1-associated loci in mouse ES cells using an open-ended chromosome conformation capture methodology
-
PID: 16823611
-
Wurtele H, Chartrand P (2006) Genome-wide scanning of HoxB1-associated loci in mouse ES cells using an open-ended chromosome conformation capture methodology. Chromosome Res 14:477–495. doi:10.1007/s10577-006-1075-0
-
(2006)
Chromosome Res
, vol.14
, pp. 477-495
-
-
Wurtele, H.1
Chartrand, P.2
-
75
-
-
33750203582
-
Circular chromosome conformation capture (4C) uncovers extensive networks of epigenetically regulated intra- and interchromosomal interactions
-
COI: 1:CAS:528:DC%2BD28XhtFeisbvP, PID: 17033624
-
Zhao Z et al (2006) Circular chromosome conformation capture (4C) uncovers extensive networks of epigenetically regulated intra- and interchromosomal interactions. Nat Genet 38:1341–1347. doi:10.1038/ng1891
-
(2006)
Nat Genet
, vol.38
, pp. 1341-1347
-
-
Zhao, Z.1
-
76
-
-
84877296402
-
Exploring long-range genome interactions using the WashU Epigenome Browser
-
COI: 1:CAS:528:DC%2BC3sXms1Ojsrc%3D, PID: 23629413
-
Zhou X, Lowdon RF, Li D, Lawson HA, Madden PA, Costello JF, Wang T (2013) Exploring long-range genome interactions using the WashU Epigenome Browser. Nat Methods 10:375–376. doi:10.1038/nmeth.2440
-
(2013)
Nat Methods
, vol.10
, pp. 375-376
-
-
Zhou, X.1
Lowdon, R.F.2
Li, D.3
Lawson, H.A.4
Madden, P.A.5
Costello, J.F.6
Wang, T.7
|