Results 41 to 50 of about 215,700 (227)
Memory-Optimised Parallel Processing of Hi-C Data [PDF]
2015 23rd Euromicro International Conference on Parallel, Distributed, and Network-Based Processing, 2015 This paper presents the optimisation efforts on the creation of a graph-based mapping representation of gene adjacency. The method is based on the Hi-C process, starting from Next Generation Sequencing data, and it analyses a huge amount of static data in order to produce maps for one or more genes.
Maurizio Drocco +4 more
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Galaxy HiCExplorer 3: a web server for reproducible Hi-C, capture Hi-C and single-cell Hi-C data analysis, quality control and visualization [PDF]
Nucleic Acids Research, 2020 AbstractThe Galaxy HiCExplorer provides a web service at https://hicexplorer.usegalaxy.eu. It enables the integrative analysis of chromosome conformation by providing tools and computational resources to pre-process, analyse and visualize Hi-C, Capture Hi-C (cHi-C) and single-cell Hi-C (scHi-C) data.
Joachim Wolff +6 more
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PLoS Computational Biology, 2022 Hi-C is a genome-wide chromosome conformation capture technology that detects interactions between pairs of genomic regions and exploits higher order chromatin structures.
Hamid Alinejad-Rokny +6 more
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THUNDER: A reference-free deconvolution method to infer cell type proportions from bulk Hi-C data.
PLoS Genetics, 2022 Hi-C data provide population averaged estimates of three-dimensional chromatin contacts across cell types and states in bulk samples. Effective analysis of Hi-C data entails controlling for the potential confounding factor of differential cell type ...
Bryce Rowland +9 more
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Hi-C analysis: from data generation to integration [PDF]
Biophysical Reviews, 2018 In the epigenetics field, large-scale functional genomics datasets of ever-increasing size and complexity have been produced using experimental techniques based on high-throughput sequencing. In particular, the study of the 3D organization of chromatin has raised increasing interest, thanks to the development of advanced experimental techniques.
Pal, Koustav +2 more
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Effective normalization for copy number variation in Hi-C data
BMC Bioinformatics, 2018 Background Normalization is essential to ensure accurate analysis and proper interpretation of sequencing data, and chromosome conformation capture data such as Hi-C have particular challenges. Although several methods have been proposed, the most widely
Nicolas Servant +4 more
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Computational and Structural Biotechnology Journal, 2023 Chromosome conformation capture (3 C) is a method of measuring chromosome topology in terms of loci interaction. The Hi-C method is a derivative of 3 C that allows for genome-wide quantification of chromosome interaction.
Van Hovenga +2 more
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DeepHiC: A generative adversarial network for enhancing Hi-C data resolution.
PLoS Computational Biology, 2020 Hi-C is commonly used to study three-dimensional genome organization. However, due to the high sequencing cost and technical constraints, the resolution of most Hi-C datasets is coarse, resulting in a loss of information and biological interpretability ...
Hao Hong +14 more
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Computational and Structural Biotechnology Journal, 2023 High-throughput chromatin conformation capture technologies, such as Hi-C and Micro-C, have enabled genome-wide view of chromatin spatial organization.
Jonathan Rosen +6 more
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Genomics and Computational Biology, 2017 The detailed analysis of chromatin structure has been enabled due to rapid development of chromosome conformation capture techniques. One of the most popular and widespread variations is high throughput conformation capture, or Hi-C, based on paired-end sequencing.
Aleksey Aleksandrovich Gavrilov +4 more
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