Table 2 Data sources and additional information
From: Deciphering multi-way interactions in the human genome
Data type | Cell type | Description |
|---|---|---|
Pore-C | IRa | Human adult dermal fibroblasts from donor punch biopsy were processed to generate Pore-C data |
Pore-C | BJ | Human neonatal foreskin fibroblasts (RRID:CVCL_3653) were processed to generate Pore-C data |
Pore-C | GM12878 | Human B lymphocyte (RRID:CVCL_7526) data were obtained from Deshpande et al.12 |
ATAC-seq | IMR-90a | Human fetal lung fibroblast (RRID:CVCL_0347) chromatin accessibility data were obtained from ENCODE (ENCFF310UDS)65 |
DNase-seq | BJ | Neonatal fibroblast chromatin accessibility data were obtained from ENCODE (ENCFF310UDS) |
ATAC-seq | GM12878 | B lymphocyte chromatin accessibility data were obtained from ENCODE (ENCFF410XEP) |
ChIP-seq | IMR-90a | Fetal lung fibroblast RNA Polymerase II binding data were obtained from ENCODE (ENCFF676DGR) |
ChIP-seq | GM12878 | B lymphocyte RNA Polymerase II binding data were obtained from ENCODE (ENCFF912DZY) |
ChIP-seq | IMR-90 | Fetal lung fibroblast CTCF binding data were obtained from ENCODE (ENCFF203SRF) |
ChIP-seq | BJ | Neonatal fibroblast CTCF binding data were obtained from ENCODE (ENCFF518RUC) |
ChIP-seq | GM12878 | B lymphocyte CTCF binding data were obtained from ENCODE (ENCFF951PEM) |
ChIP-seq | IMR-90a | Fetal lung fibroblast RAD21 binding data were obtained from ENCODE (ENCSR000EFJ) |
ChIP-seq | GM12878 | B lymphocyte RAD21 binding data were obtained from ENCODE (ENCSR000EAC) |
ChIP-seq | IMR-90a | Fetal lung fibroblast SMC3 binding data were obtained from ENCODE (ENCSR000HPG) |
ChIP-seq | GM12878 | B lymphocyte SMC3 binding data were obtained from ENCODE (ENCSR000DZP) |
RNA-seq | IMR-90a | Fetal lung fibroblast gene expression data were averaged over two samples obtained from ENCODE (ENCFF353SBP, ENCFF496RIW) |
RNA-seq | IRa | Adult fibroblasts were processed to generate gene expression data |
RNA-seq | BJ | Neonatal fibroblast gene expression data were averaged across two samples obtained from ENCODE (ENCFF477JDG, ENCFF005WBQ) |
RNA-seq | BJ | Neonatal fibroblasts were processed to generate gene expression data |
RNA-seq | GM12878 | B lymphocyte gene expression data were averaged across two samples obtained from ENCODE (ENCFF306TLL, ENCFF418FIT) |
Enhancers | IMR-90a | Fetal lung fibroblast enhancer data were obtained from EnhancerAtlas 2.066 |
Enhancers | BJ | Neonatal fibroblast enhancer data were obtained from EnhancerAtlas 2.066 |
Enhancers | GM12878 | B lymphocyte enhancer location data were obtained from EnhancerAtlas 2.066 |
