Hello FUMA team,
Is it possible to access the chromatin interaction maps used by FUMA?
e.g.
ciMapBuiltin = EP/PsychENCODE/EP_links_oneway.txt.gz:HiC/PsychENCODE/Promoter_anchored_loops.txt.gz:EP/FANTOM5/EP_correlation_cell_type_oneway.txt.gz:EP/FANTOM5/EP_correlation_organ_oneway.txt.gz:HiC/Giusti-Rodriguez_et_al_2019/Adult_Cortex.txt.gz:HiC/Giusti-Rodriguez_et_al_2019/Fetal_Cortex.txt.gz:HiC/GSE87112/Adrenal.txt.gz:HiC/GSE87112/Aorta.txt.gz:HiC/GSE87112/Bladder.txt.gz:HiC/GSE87112/Dorsolateral_Prefrontal_Cortex.txt.gz:HiC/GSE87112/Hippocampus.txt.gz:HiC/GSE87112/Left_Ventricle.txt.gz:HiC/GSE87112/Liver.txt.gz:HiC/GSE87112/Lung.txt.gz:HiC/GSE87112/Ovary.txt.gz:HiC/GSE87112/Pancreas.txt.gz:HiC/GSE87112/Psoas.txt.gz:HiC/GSE87112/Right_Ventricle.txt.gz:HiC/GSE87112/Small_Bowel.txt.gz:HiC/GSE87112/Spleen.txt.gz:HiC/GSE87112/GM12878.txt.gz:HiC/GSE87112/IMR90.txt.gz:HiC/GSE87112/Mesenchymal_Stem_Cell.txt.gz:HiC/GSE87112/Mesendoderm.txt.gz:HiC/GSE87112/Neural_Progenitor_Cell.txt.gz:HiC/GSE87112/Trophoblast-like_Cell.txt.gz:HiC/GSE87112/hESC.txt.gz
While I see that some original data sources are linked, it isn't clear to me which files from
https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE87112 correspond to the summary level chromatin interactions used when selecting Hi-C of 21 tissue/cell types. In addition, I could not find a link for Giusti-Rodriguez et al., 2019.
Is it possible to access the FUMA files directly, or can you advise on how to best locate/reconstruct them?
Kind regards,
Shannon