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Topologically associating domains and chromatin loops depend on cohesin and are regulated by CTCF, WAPL, and PDS5 proteins

The EMBO journal, 2017-12, Vol.36 (24), p.3573-3599

2017

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CHiCAGO: robust detection of DNA looping interactions in Capture Hi-C data

Genome Biology, 2016-06, Vol.17 (1), p.127-127, Article 127

2016

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Long-range enhancer-promoter contacts in gene expression control

Nature reviews. Genetics, 2019-08, Vol.20 (8), p.437-455

2019

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Comparison of Hi-C results using in-solution versus in-nucleus ligation

Genome Biology, 2015-08, Vol.16 (1), p.175-175, Article 175

2015

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Widespread allele-specific topological domains in the human genome are not confined to imprinted gene clusters

Genome Biology, 2023-03, Vol.24 (1), p.40-40, Article 40

2023

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Hi-C as a tool for precise detection and characterisation of chromosomal rearrangements and copy number variation in human tumours

Genome Biology, 2017-06, Vol.18 (1), p.125-125, Article 125

2017

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The transcriptional interactome: gene expression in 3D

Current opinion in genetics & development, 2010-04, Vol.20 (2), p.127-133

2010

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Global Reorganization of the Nuclear Landscape in Senescent Cells

Cell reports (Cambridge), 2015-02, Vol.10 (4), p.471-483

2015

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GOTHiC, a probabilistic model to resolve complex biases and to identify real interactions in Hi-C data

PloS one, 2017-04, Vol.12 (4), p.e0174744-e0174744

2017

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HiCUP: pipeline for mapping and processing Hi-C data [version 1; peer review: 2 approved, 1 approved with reservations]

F1000 research, 2015, Vol.4, p.1310-1310

2015

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Unbiased analysis of potential targets of breast cancer susceptibility loci by Capture Hi-C

Genome research, 2014-11, Vol.24 (11), p.1854-1868

2014

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Capture Hi-C identifies the chromatin interactome of colorectal cancer risk loci

Nature communications, 2015-02, Vol.6 (1), p.6178-6178, Article 6178

2015

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Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells

Nature genetics, 2010-01, Vol.42 (1), p.53-61

2010

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Transcription-dependent cohesin repositioning rewires chromatin loops in cellular senescence

Nature communications, 2020-11, Vol.11 (1), p.6049-14, Article 6049

2020

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Cis-Regulatory Control of Mammalian Sex Determination

Sexual development, 2021-12, Vol.15 (5-6), p.317-334

2021

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Promoter Capture Hi-C: High-resolution, Genome-wide Profiling of Promoter Interactions

Journal of visualized experiments, 2018-06 (136)

2018

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Widespread reorganisation of pluripotent factor binding and gene regulatory interactions between human pluripotent states

Nature communications, 2021-04, Vol.12 (1), p.2098-2098, Article 2098

2021

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Long-Range Enhancer Interactions Are Prevalent in Mouse Embryonic Stem Cells and Are Reorganized upon Pluripotent State Transition

Cell reports (Cambridge), 2018-03, Vol.22 (10), p.2615-2627

2018

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Divergent wiring of repressive and active chromatin interactions between mouse embryonic and trophoblast lineages

Nature communications, 2018-10, Vol.9 (1), p.4189-10, Article 4189

2018

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Improved simultaneous mapping of epigenetic features and 3D chromatin structure via ViCAR

Genome Biology, 2024-09, Vol.25 (1), p.1-10, Article 237

2024

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HMGA1 orchestrates chromatin compartmentalization and sequesters genes into 3D networks coordinating senescence heterogeneity

Nature communications, 2024-08, Vol.15 (1), p.6891-18, Article 6891

2024

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Thrombopoietin signaling to chromatin elicits rapid and pervasive epigenome remodeling within poised chromatin architectures

Genome research, 2018-03, Vol.28 (3), p.295-309

2018

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Global reorganisation of cis -regulatory units upon lineage commitment of human embryonic stem cells

eLife, 2017-03, Vol.6

2017

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Short- and long-range cis interactions between integrated HPV genomes and cellular chromatin dysregulate host gene expression in early cervical carcinogenesis

PLoS pathogens, 2021-08, Vol.17 (8), p.e1009875

2021

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Topologically associating domains and chromatin loops depend on cohesin and are regulated by CTCF, WAPL, and PDS5 proteins

CHiCAGO: robust detection of DNA looping interactions in Capture Hi-C data

Long-range enhancer-promoter contacts in gene expression control

Comparison of Hi-C results using in-solution versus in-nucleus ligation

Widespread allele-specific topological domains in the human genome are not confined to imprinted gene clusters

Hi-C as a tool for precise detection and characterisation of chromosomal rearrangements and copy number variation in human tumours

The transcriptional interactome: gene expression in 3D

Global Reorganization of the Nuclear Landscape in Senescent Cells

GOTHiC, a probabilistic model to resolve complex biases and to identify real interactions in Hi-C data

HiCUP: pipeline for mapping and processing Hi-C data [version 1; peer review: 2 approved, 1 approved with reservations]

Unbiased analysis of potential targets of breast cancer susceptibility loci by Capture Hi-C

Capture Hi-C identifies the chromatin interactome of colorectal cancer risk loci

Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells

Transcription-dependent cohesin repositioning rewires chromatin loops in cellular senescence

Cis-Regulatory Control of Mammalian Sex Determination

Promoter Capture Hi-C: High-resolution, Genome-wide Profiling of Promoter Interactions

Widespread reorganisation of pluripotent factor binding and gene regulatory interactions between human pluripotent states

Long-Range Enhancer Interactions Are Prevalent in Mouse Embryonic Stem Cells and Are Reorganized upon Pluripotent State Transition

Divergent wiring of repressive and active chromatin interactions between mouse embryonic and trophoblast lineages

Improved simultaneous mapping of epigenetic features and 3D chromatin structure via ViCAR

ESCO1 and CTCF enable formation of long chromatin loops by protecting cohesinSTAG1 from WAPL

HMGA1 orchestrates chromatin compartmentalization and sequesters genes into 3D networks coordinating senescence heterogeneity

Thrombopoietin signaling to chromatin elicits rapid and pervasive epigenome remodeling within poised chromatin architectures

Global reorganisation of cis -regulatory units upon lineage commitment of human embryonic stem cells

Short- and long-range cis interactions between integrated HPV genomes and cellular chromatin dysregulate host gene expression in early cervical carcinogenesis

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