Results 1 to 10 of about 243,805 (237)
Benchmarking alignment strategies for Hi-C reads in metagenomic Hi-C data [PDF]
Genome BiologyBackground Metagenomics combined with High-throughput Chromosome Conformation Capture (Hi-C) provides a powerful approach to study microbial communities by linking genomic content with spatial interactions.
Yuqiu Wang +4 more
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A cookbook for DNase Hi-C [PDF]
Epigenetics & Chromatin, 2021 Background The Hi-C technique is widely employed to study the 3-dimensional chromatin architecture and to assemble genomes. The conventional in situ Hi-C protocol employs restriction enzymes to digest chromatin, which results in nonuniform genomic ...
Maria Gridina +10 more
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covNorm: An R package for coverage based normalization of Hi-C and capture Hi-C data
Computational and Structural Biotechnology Journal, 2021 Hi-C and capture Hi-C have greatly advanced our understanding of the principles of higher-order chromatin structure. In line with the evolution of the Hi-C protocols, there is a demand for an advanced computational method that can be applied to the ...
Kyukwang Kim, Inkyung Jung
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VEHiCLE: a Variationally Encoded Hi-C Loss Enhancement algorithm for improving and generating Hi-C data [PDF]
Scientific Reports, 2021 Chromatin conformation plays an important role in a variety of genomic processes. Hi-C is one of the most popular assays for inspecting chromatin conformation. However, the utility of Hi-C contact maps is bottlenecked by resolution.
Max Highsmith, Jianlin Cheng
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Comparison of Capture Hi-C Analytical Pipelines [PDF]
Frontiers in Genetics, 2022 It is now evident that DNA forms an organized nuclear architecture, which is essential to maintain the structural and functional integrity of the genome.
Dina Aljogol +4 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
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Puzzle Hi-C: An accurate scaffolding software.
PLoS ONEHigh-quality, chromosome-scale genomes are essential for genomic analyses. Analyses, including 3D genomics, epigenetics, and comparative genomics rely on a high-quality genome assembly, which is often accomplished with the assistance of Hi-C data ...
Guoliang Lin +12 more
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Single‐Cell Hi‐C Technologies and Computational Data Analysis [PDF]
Advanced ScienceSingle‐cell chromatin conformation capture (scHi‐C) techniques have evolved to provide significant insights into the structural organization and regulatory mechanisms in individual cells.
Madison A Dautle, Yong Chen
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Measuring the reproducibility and quality of Hi-C data
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
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Significance in scale space for Hi-C data [PDF]
BioinformaticsAbstract Motivation Hi-C technology has been developed to profile genome-wide chromosome conformation. So far Hi-C data have been generated from a large compendium of different cell types and different tissue types. Among different chromatin conformation units, chromatin loops were found to play a key
Rui Liu +3 more
openaire +3 more sources