GITAR processed data

Collection of datasets processed using HiCtool. The results for intrachromosomal contact matrices, Directionality Index, HMM states and Topological Domains are stored into zip files available for downloading. For more information about how the data were processed, please see HiCtool documentation.

If you use the following data in your research, please cite the manuscript on bioRxiv.

Homo Sapiens (hg38, GRCh38)

GEO accession number Cell line Reference Intrachromosomal contact matrix (*) Directionality Index HMM states Topological Domains
GSM1909121 Haploid fibroblast-like Hap1 Sanborn et al. (2015)
GSM1718021 Human Embryonic Stem Cells H9 Nagano et al. (2015)
GSM1608505 Lymphoblastoid GM12878 Grubert et al. (2015)
GSM1267200 H1 Mesenchymal stem cells Dixon et al. (2015)
GSM1267196 Embryonic stem cells H1 Dixon et al. (2015)
GSM1551599 Lung Fibroblasts IMR90 (CCL-186) Rao et al. (2014)
GSM1551550 B-lymphoblastoids GM12878 Rao et al. (2014)
GSM1294039 Breast cancer cell line T47D-MTVL, progestin R5020-stimulated Le Dily et al. (2014)
GSM1294038 Breast cancer cell line T47D-MTVL, unstimulated Le Dily et al. (2014)
GSM1081530 HEK293T Zuin et al. (2014)
GSM1906334 MHH-CALL- 4 B-cell acute lymphocytic leukemia CALL4 Wang et al. (2013)
GSM1906333 Primary TumorB-cell acute lymphocytic leukemia B-ALL Wang et al. (2013)
GSM1906332 B-cell Follicular Lymphoma RL Wang et al. (2013)
GSM1055805 Embryonic stem cells H1 Jin et al. (2013)
GSM1055800 Fetal lung fibroblast IMR90 Jin et al. (2013)
GSM927075 ERG prostate epithelial cell line RWPE-1 Rickman et al. (2012)
GSM862724 Fetal lung fibroblast IMR90 Dixon et al. (2012)
GSM862723 Human Embryonic Stem Cells H1 Dixon et al. (2012)
GSM455133 EBV-transformed lymphoblastoid GM06990 Lieberman-Aiden et al. (2009)

Mus Musculus (mm10, GRCm38)

GEO accession number Cell line Reference Intrachromosomal contact matrix (*) Directionality Index HMM states Topological Domains
GSM1551633 B-lymphoblasts CH12-LX Rao et al. (2014)
GSM862720 Mouse Embryonic Stem Cells line J1 Dixon et al. (2012)

(*) Note: each contact matrix filename is formatted specifying contact data type, chromosome name, bin size, start coordinate, end coordinate in this order.