Table 4.
Functions and transcriptional regulators of gene batteries in muscle.
| NO. | FUNCTIONS | PATTERNS | TRANSCRIPTION FACTORS* |
|---|---|---|---|
| 1 | Adherens junction | 2 | E2FF, NR2F, SP1F, RXRF, NKXH, HOXF, ETSF, EVI1, BRNF, FKHD, MYBL, SORY, OCT1, CTCF, EGRF |
| 2 | Aminoacyl-tRNA biosynthesis | 1 | HOXF, ETSF, NKX6, OCT1, CREB, RUSH, STAT, HOMF, P53F |
| 3 | ECM-receptor interaction | 2 | ETSF, RXRF, SP1F, NR2F, CTCF, E2FF, GKLF, GLIF, NEUR, SORY, SRFF |
| 4 | Focal adhesion | 2 | EGRF, SP1F, ETSF, RXRF, ZBPF, CTCF |
| 4a | Focal adhesion | 3 | NR2F, EGRF, OCT1, ETSF, MYOD, NOLF, SORY, RXRF, GLIF, MZF1, EKLF, EREF, EVI1, HOMF, NKXH |
| 5 | Insulin signaling pathway | 2 | EGRF, ZBPF, AHRR, E2FF, EBOX, MAZF, SP1F, CTCF, GLIF, HESF, HOXF, SNAP |
| 6 | Lysosome | 1 | EBOX, ETSF, EGRF, GRHL, ABDB, AHRR, CREB, CTCF, HOMF, MAZF, NR2F |
| 7 | MAPK signaling pathway | 2 | E2FF, NKXH, EGRF, OCT1, HOXF, CTCF, FKHD, HOMF, NKX6, PAX6, ZBPF |
| 8 | Neurotrophin signaling pathway | 2 | ZBPF, HESF, SP1F, PLAG, EGRF, ETSF, E2FF, EKLF, MAZF, GLIF |
| 9 | Cell cycle relevant-processes | 2 | HOMF, HOXF, FKHD, ETSF, NKXH, CREB, LHXF, E2FF, ZF5F, HEAT, STAT, EKLF, CTCF, CLOX, ZBPF |
| 10 | Oxidative phosphorylation | 5 | PAX5, BRNF, NR2F, ETSF, HNF1, FKHD, IRFF, AP1F, SORY, HNF6, HOXF, FAST, CREB, MYBL, OVOL |
| 11 | Pentose phosphate pathway | 2 | NR2F, TBPF, CLOX, GATA, HOXF, PAX2, TALE |
| 12 | PPAR signaling pathway | 1 | CLOX, ETSF, EVI1, GATA, NKXH, NR2F, STAT, ZBPF |
| 13 | Proteasome | 1 | HOXF, ETSF, HOMF, E2FF, STAT, NKXH, CLOX, EVI1, CAAT |
| 14 | Purine metabolism | 1 | RXRF, ETSF, HOXF, STAT, NKXH, PAX6, PAX8, SORY, TBPF, EREF, AP1R, CAAT, CREB, FKHD, NR2F |
| 15 | Spliceosome | 1 | CREB, ETSF, HEAT, EVI1, E2FF, HNF6, HOXF, ABDB, CLOX, DMRT, IRFF, MYT1, NFKB |
| 16 | Tight junction | 2 | PAX5, OCT1, HOXC, SP1F, NR2F, TBPF, NKXH |
| 17 | Ubiquitin mediated proteolysis | 1 | HOXF, BRNF, FKHD, TBPF, NKXH, LHXF, SORY, HOMF, NKX6, PARF, OCT1, CDXF, GATA, YY1F, ETSF |
| 18 | Wnt signaling pathway | 2 | ETSF, CREB, HOMF, HOXF, EGRF, NKXH |
Notes:
*
TFs associated with overrepresented cis-regulatory modules. If the number of associated TFs is ≥15, only the first 15 most frequently-associated TFs in statistical significant CRMs are reported. TFs shown in bold type are those present commonly more than 20% across all gene batteries.