Replication dataset for "A comprehensive review and benchmark of differential analysis tools for Hi-C data"

Dataset

DOI

Hi-C datasets. 5 matrices corresponding to technical replicates, all given at three different resolutions (200 kb, 500kb, 1Mb) and for three different chromosomes (1, 7, 21).

Original sequencing data are ENCODE data from a Hi-C experiment performed on a human colon sample (experiment accession: ENCSR295BDK), that include five technical replicates (sequencing runs). To obtain Hi-C matrices, raw sequencing reads of each technical replicate were processed using the nf-core/hic pipeline v1.2.2 on the assembly version GRCh38 of the human genome.

R, 4.1.2

bash, 4.2.46

nf-core/hic, 1.2.2

Identifier
DOI	https://doi.org/10.57745/LR0W9R
Metadata Access	https://entrepot.recherche.data.gouv.fr/oai?verb=GetRecord&metadataPrefix=oai_datacite&identifier=doi:10.57745/LR0W9R

Provenance
Creator	Vialaneix, Nathalie
Publisher	Recherche Data Gouv
Contributor	Vialaneix, Nathalie; Foissac, Sylvain; Institut national de recherche pour l'agriculture, l'alimentation et l'environnement (INRAE); Entrepôt-Catalogue Recherche Data Gouv
Publication Year	2024
Rights	etalab 2.0; info:eu-repo/semantics/openAccess; https://spdx.org/licenses/etalab-2.0.html
OpenAccess	true
Contact	Vialaneix, Nathalie (Université Fédérale de Toulouse, INRAE, MIAT); Foissac, Sylvain (GenPhySE, Université de Toulouse, INRAE, ENVT)

Representation
Resource Type	Dataset
Format	application/x-shellscript; text/x-r-markdown; text/html; application/octet-stream; text/markdown; text/plain
Size	7099; 2600; 1848; 827808; 823808; 825296; 823711; 822840; 822495; 826416; 825532; 284350; 281602; 285044; 278342; 280195; 6142; 11877; 11745; 11843; 11660; 11717; 1197; 177214; 176257; 177426; 174541; 175619; 4096; 83050; 6293003; 6125962; 6322081; 5879090; 6035918; 31396; 244202; 239991; 244665; 233214; 236896; 6205; 3743437; 3687070; 3754196; 3605606; 3657872; 20407; 408288; 1106204; 1096474; 1108030; 1082359; 1090855; 12394; 41609; 41225; 41785; 40554; 40922; 2397; 660475; 656316; 661286; 651199; 654315; 8167; 162843; 35129; 2201
Version	1.0
Discipline	Mathematics; Life Sciences; Medicine