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Mapping long-range promoter contacts in human cells with high-resolution capture Hi-C
Transcriptional control in large genomes often requires looping interactions between distal DNA elements, such as enhancers and target promoters. Current chromosome conformation capture techniques doExpand
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Lineage-Specific Genome Architecture Links Enhancers and Non-coding Disease Variants to Target Gene Promoters
Summary Long-range interactions between regulatory elements and gene promoters play key roles in transcriptional regulation. The vast majority of interactions are uncharted, constituting a majorExpand
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FastQ Screen: A tool for multi-genome mapping and quality control.
DNA sequencing analysis typically involves mapping reads to just one reference genome.  Mapping against multiple genomes is necessary, however, when the genome of origin requires confirmation.Expand
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Cell-cycle dynamics of chromosomal organisation at single-cell resolution
Chromosomes in proliferating metazoan cells undergo marked structural metamorphoses every cell cycle, alternating between highly condensed mitotic structures that facilitate chromosome segregation,Expand
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CHiCAGO: robust detection of DNA looping interactions in Capture Hi-C data
Capture Hi-C (CHi-C) is a method for profiling chromosomal interactions involving targeted regions of interest, such as gene promoters, globally and at high resolution. Signal detection in CHi-C dataExpand
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The pluripotent regulatory circuitry connecting promoters to their long-range interacting elements.
The mammalian genome harbors up to one million regulatory elements often located at great distances from their target genes. Long-range elements control genes through physical contact with promotersExpand
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HiCUP: pipeline for mapping and processing Hi-C data
HiCUP is a pipeline for processing sequence data generated by Hi-C and Capture Hi-C (CHi-C) experiments, which are techniques used to investigate three-dimensional genomic organisation. The pipelineExpand
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Global Reorganization of the Nuclear Landscape in Senescent Cells
Summary Cellular senescence has been implicated in tumor suppression, development, and aging and is accompanied by large-scale chromatin rearrangements, forming senescence-associated heterochromaticExpand
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Polycomb repressive complex PRC1 spatially constrains the mouse embryonic stem cell genome
The Polycomb repressive complexes PRC1 and PRC2 maintain embryonic stem cell (ESC) pluripotency by silencing lineage-specifying developmental regulator genes. Emerging evidence suggests that PolycombExpand
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Unbiased analysis of potential targets of breast cancer susceptibility loci by Capture Hi-C.
Genome-wide association studies have identified more than 70 common variants that are associated with breast cancer risk. Most of these variants map to non-protein-coding regions and several map toExpand
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