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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Hypergraph Analysis Toolbox for Chromosome Conformation [PDF]
, 2022 Recent advances in biological technologies, such as multi-way chromosome conformation capture (3C), require development of methods for analysis of multi-way interactions.
Indika Rajapakse +15 more
core +1 more source
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.
openaire +3 more sources
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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Analysis of β-globin chromatin micro-environment using a novel 3C variant, 4Cv [PDF]
, 2010 Copyright: © 2010 Pink et al.Higher order chromatin folding is critical to a number of developmental processes, including the regulation of gene expression.
Christopher H Eskiw +17 more
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Sequence-based multiscale modeling for high-throughput chromosome conformation capture (Hi-C) data analysis. [PDF]
PLoS ONE, 2018 In this paper, we introduce sequence-based multiscale modeling for biomolecular data analysis. We employ spectral clustering method in our modeling and reveal the difference between sequence-based global scale clustering and local scale clustering ...
Kelin Xia
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Current Issues in Molecular Biology, 2023 Understanding the three-dimensional (3D) structure of chromatin is invaluable for researching how it functions. One way to gather this information is the chromosome conformation capture (3C) technique and its follow-up technique Hi-C.
David Vadnais, Oluwatosin Oluwadare
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Microfluidics-Based Chromosome Conformation Capture (3C) Technology for Examining Chromatin Organization with a Low Quantity of Cells. [PDF]
Anal Chem, 2018 Detecting three-dimensional (3D) genome organization in the form of physical interactions between various genomic loci is of great importance for understanding transcriptional regulations and cellular fate.
Sun C, Lu C.
europepmc +2 more sources