Computational methods for predicting 3D genomic organization from high-resolution chromosome conformation capture data [PDF]
Briefings in Functional Genomics, 2020 Kimberly Mackay, Anthony Kusalik
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Chromosome Conformation Capture and Beyond: Toward an Integrative View of Chromosome Structure and Function. [PDF]
Mol Cell, 2020 Rapidly developing technologies have recently fueled an exciting era of discovery in the field of chromosome structure and nuclear organization. In addition to chromosome conformation capture (3C) methods, new alternative techniques have emerged to study
McCord RP, Kaplan N, Giorgetti L.
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Capture-C: a modular and flexible approach for high-resolution chromosome conformation capture. [PDF]
Nat Protoc, 2022 Chromosome conformation capture (3C) methods measure the spatial proximity between DNA elements in the cell nucleus. Many methods have been developed to sample 3C material, including the Capture-C family of protocols.
Downes DJ +9 more
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3D genome organization and epigenetic regulation in autoimmune diseases
Frontiers in Immunology, 2023 Three-dimensional (3D) genomics is an emerging field of research that investigates the relationship between gene regulatory function and the spatial structure of chromatin.
Yueqi Qiu +13 more
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The DLO Hi-C Tool for Digestion-Ligation-Only Hi-C Chromosome Conformation Capture Data Analysis. [PDF]
Genes (Basel), 2020 It is becoming increasingly important to understand the mechanism of regulatory elements on target genes in long-range genomic distance. 3C (chromosome conformation capture) and its derived methods are now widely applied to investigate three-dimensional (
Hong P +6 more
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Nature Communications, 2023 The organisation of the genome in nuclear space is an important frontier of biology. Chromosome conformation capture methods such as Hi-C and Micro-C produce genome-wide chromatin contact maps that provide rich data containing quantitative and ...
Ediem Al-jibury +6 more
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Stripenn detects architectural stripes from chromatin conformation data using computer vision
Nature Communications, 2022 Chromosome conformation capture techniques have recently revealed features beyond chromatin loops such as architectural stripes. Here the authors present their stripe detection tool ‘Stripenn’ to detect and quantitate stripes from any type of chromatin ...
Sora Yoon, Aditi Chandra, Golnaz Vahedi
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Identifying and Reducing Systematic Errors in Chromosome Conformation Capture Data. [PDF]
PLoS ONE, 2015 Chromosome conformation capture (3C)-based techniques have recently been used to uncover the mystic genomic architecture in the nucleus. These techniques yield indirect data on the distances between genomic loci in the form of contact frequencies that ...
Seungsoo Hahn, Dongsup Kim
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Chromosome Conformation Capture in Bacteria and Archaea
, 2022 The three-dimensional structure of the chromosome is encoded within its sequence and regulates activities such as replication and transcription. This necessitates the study of the spatial organization of the chromosome in relation to the underlying sequence.
Rashid, F.M.Z., Detmar, L., Dame, R.T.
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Novel insights into chromosomal conformations in cancer
Molecular Cancer, 2017 Exploring gene function is critical for understanding the complexity of life. DNA sequences and the three-dimensional organization of chromatin (chromosomal interactions) are considered enigmatic factors underlying gene function, and interactions between
Ruobing Jia +3 more
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