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Genome structure tools

The 3D structure of the genome plays a critical role in regulating gene expression. Recent progress in mapping technologies for chromatin interactions has led to a rapid increase in this kind of interaction data.Source text:(Teng et al., 2015)…
LOGIQA
Dataset

LOGIQA Long-range Genome Interactions Quality Assessment

A database for hosting quality scores dedicated to long-range chromatin…

A database for hosting quality scores dedicated to long-range chromatin interaction assay. LOGIQA provides a platform for visualizing genome interactions made available by the scientific community.…

C3D
Desktop

C3D Cross Cell-type Correlation based on DNA accessibility

Allows prediction of chromatin interactions using an unsupervised algorithm.…

Allows prediction of chromatin interactions using an unsupervised algorithm. C3D computes correlations between genomic measurements to predict chromatin interactions between genomic regions of…

4DGenome
Dataset

4DGenome

A general repository for chromatin interaction data. Records in 4DGenome are…

A general repository for chromatin interaction data. Records in 4DGenome are compiled through comprehensive literature curation of experimentally-derived and computationally-predicted interactions.…

CCSI
Dataset

CCSI Chromatin Chromatin Space Interaction

A database for the collection, interpretation and analysis of chromatin…

A database for the collection, interpretation and analysis of chromatin interaction data. CCSI was constructed by integrating and annotating 91 sets of chromatin interaction data derived from…

3CDB
Dataset

3CDB Chromosome Conformation Capture

A database of 3C determined functional chromatin interactions. To construct…

A database of 3C determined functional chromatin interactions. To construct 3CDB, we searched PubMed and Google Scholar with carefully designed keyword combinations and retrieved more than 5000…

3DGD
Dataset

3DGD 3D Genome Database

A database that currently collected Hi-C data on four species, for easy…

A database that currently collected Hi-C data on four species, for easy accessing and visualization of chromatin 3D structure data. With the integration of other omics data such as genome-wide…

Information

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