Additional file 2 of Modeling combinatorial regulation from single-cell multi-omics provides regulatory units underpinning cell type landscape using cRegulon

Additional file 2: Table S1: Functional enrichment with TGs of M2 and M6 in simulation experiment. Table S2: The AUPRC values of five methods on four gold standard TF pair sets. Table S3: cRegulons of human fetal atlas. Table S4: Top 20 GO pathways enriched in cRegulon, DEGs, ChromVAR TFs, SCENIC TFs and SCENIC + TFs of hematopoietic stem cell. Table S5: Top 20 GO pathways enriched in cRegulon, DEGs, ChromVAR TFs, SCENIC TFs and SCENIC + TFs of Syncytiotrophoblasts-and-villous-cytotrophoblasts. Table S6: Summary of the sequencing, mapping, and cells for scRNA-seq and scATAC-seq of RA data. Table S7: Marker genes analys with Seurat for 17 cell clusters of RA data. Table S8: cRegulons of RA dataset. Table S9: Top 20 GO pathways enriched in early cRegulon, early markers, early SCENIC TFs, early ChromVAR TFs and early SCENIC + TFs. Table S10: Top 20 GO pathways enriched in late cRegulon, late markers, late SCENIC TFs, late ChromVAR TFs and late SCENIC + TFs. Table S11: The ENCODE accession and download url of TF ChIP-seq and H3K27ac ChIA-PET data of K562.