Results 11 to 20 of about 39,833,464 (257)
HiCeekR: A Novel Shiny App for Hi-C Data Analysis [PDF]
Frontiers in Genetics, 2019 The High-throughput Chromosome Conformation Capture (Hi-C) technique combines the power of the Next Generation Sequencing technologies with chromosome conformation capture approach to study the 3D chromatin organization at the genome-wide scale. Although
Lucio Di Filippo +5 more
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Comparison of normalization methods for Hi-C data [PDF]
BioTechniques, 2020 Hi-C has been predominately used to study the genome-wide interactions of genomes. In Hi-C experiments, it is believed that biases originating from different systematic deviations lead to extraneous variability among raw samples, and affect the ...
Hongqiang Lyu, Erhu Liu, Zhifang Wu
doaj +3 more sources
Visualizing and Annotating Hi-C Data
, 2021 Epigenomics studies require the combined analysis and integration of multiple types of data and annotations to extract biologically relevant information.
Pal K +3 more
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Loop detection using Hi-C data with HiCExplorer [PDF]
GigaScience, 2022 BACKGROUND: Chromatin loops are an essential factor in the structural organization of the genome; however, their detection in Hi-C interaction matrices is a challenging and compute-intensive task.
Grüning, Björn +2 more
core +4 more sources
BEKVAEM: INTEGRATIVE DATA EXPLORER FOR HI-C DATA
Journal of Bioinformatics and Genomics, 2019 Motivation: The browser-based visualization of Hi-C contact maps alongside complementary data tracks is a computationally challenging task and requires an efficient software implementation to run on small clients.
Андреас Хофманн +3 more
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The DLO Hi-C Tool for Digestion-Ligation-Only Hi-C Chromosome Conformation Capture Data Analysis [PDF]
Genes, 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 (
Hao Jiang +6 more
core +4 more sources
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 International audienceThe 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 ...
Manke, Thomas +7 more
core +6 more sources
FIREcaller: Detecting frequently interacting regions from Hi-C data [PDF]
Computational and Structural Biotechnology Journal, 2021 Hi-C experiments have been widely adopted to study chromatin spatial organization, which plays an essential role in genome function. We have recently identified frequently interacting regions (FIREs) and found that they are closely associated with cell ...
Cheynna Crowley +11 more
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Inferring chromosome radial organization from Hi-C data [PDF]
BMC Bioinformatics, 2020 Background The nonrandom radial organization of eukaryotic chromosome territories (CTs) inside the nucleus plays an important role in nuclear functional compartmentalization. Increasingly, chromosome conformation capture (Hi-C) based approaches are being
Priyojit Das +2 more
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Measuring the reproducibility and quality of Hi-C data [PDF]
Genome Biology, 2019 Background Hi-C is currently the most widely used assay to investigate the 3D organization of the genome and to study its role in gene regulation, DNA replication, and disease.
Galip Gürkan Yardımcı +18 more
doaj +3 more sources