Results 1 to 10 of about 2,360,372 (228)
HiC4D: forecasting spatiotemporal Hi-C data with residual ConvLSTM. [PDF]
Brief Bioinform, 2023 The Hi-C experiments have been extensively used for the studies of genomic structures. In the last few years, spatiotemporal Hi-C has largely contributed to the investigation of genome dynamic reorganization.
Liu T, Wang Z.
europepmc +4 more sources
Revisiting Assessment of Computational Methods for Hi-C Data Analysis. [PDF]
Int J Mol Sci, 2023 The performances of algorithms for Hi-C data preprocessing, the identification of topologically associating domains, and the detection of chromatin interactions and promoter–enhancer interactions have been mostly evaluated using semi-quantitative ...
Yang J, Zhu X, Wang R, Li M, Tang Q.
europepmc +4 more sources
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
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Polymer Folding Simulations from Hi-C Data
, 2021 In the absence of a clear molecular understanding of the mechanism that stabilizes specific contacts in interphasic chromatin, we resort to the principle of maximum entropy to build a polymeric model based on the Hi-C data of the specific system one ...
Guido Tiana +5 more
core +3 more sources
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
Angelini C. +4 more
core +9 more sources
3D Genome Reconstruction from Partially Phased Hi-C Data. [PDF]
Bull Math BiolThe 3-dimensional (3D) structure of the genome is of significant importance for many cellular processes. In this paper, we study the problem of reconstructing the 3D structure of chromosomes from Hi-C data of diploid organisms, which poses additional ...
Cifuentes D +4 more
europepmc +2 more sources
Hi-C interaction map on GM12878 HiC data.
, 2022 Heatmap showing the raw read count of interactions at 5k bins of chr21 (36000kb to 39500kb) (same region as S10 Fig in the cLoops paper [43] on the GM12878 Hi-C dataset in Rao et al. [5]. The heatmap is colored based on the log of read count. Significant
Hamid Alinejad-Rokny (518381) +6 more
core +1 more source
Spectral and deep learning approaches to Hi-C data analysis [PDF]
, 2021 Hi-C matrices describe the genome-wide contact probability between chromatin loci. The comparison of Hi-C matrices is important both to assess the reproducibility in biological replicates and to find significant differences between non replicates from ...
Franzini, Stefano
core
Hi-C maps, 3D communities, and domains.
, 2023 (a) Hi-C maps where the red-to-blue pixel colors are a proxy for short-to-long 3D distances. The squares decorating the map’s diagonals represent GenLouvain-derived 3D communities for three γ values (0.5, 0.6, and 0.7).
Dolores Bernenko (16528426) +3 more
core +1 more source
HI-FRIENDS participation in the SKA Data Challenge 2
, 2021 This repository contains the workflow used to find and characterize the HI sources in the data cube of the SKA Data Challenge 2. This is developed by the HI-FRIENDS team.
Darriba, Laura +16 more
core +1 more source