Table 2.
Transcriptional Network and Phenotype of Oct4-Interacting Proteins
| Protein | Promoter Co-occup. with Oct4a | Gene Bound by Oct4a | Expression Change upon Oct4 Depletionb | ESC Depletion Phenotypec | Developmental Phenotyped (Emb. Day of Lethality) |
|---|---|---|---|---|---|
| NuRD Complex | |||||
| Mi2beta | - | no | no | - | - |
| Mta1 | - | no | no | differentiation | - |
| Gatad2a | - | no | no | not detected | ∼E10.5 |
| Mta2 | - | yes | no | not detected | - |
| Gatad2b | - | no | no | - | - |
| Hdac1 | - | no | no | reduced proliferation | before E10.5 |
| Mbd3 | - | yes | no | increased self-renewal | ∼E8.5 |
| Mta3 | - | yes | no | - | - |
| Hdac2 | - | yes | no | not detected | viable |
| Rbbp7 | - | no | down | - | - |
| SWI/SNF Complex | |||||
| Baf155 | - | yes | down | differentiation | before E5.5 |
| Brg1 | - | no | no | differentiation | before E6.5 |
| PRC1/Mblr Complex | |||||
| Phc1 | - | yes | down | - | perinatal |
| Ring1b | yes | no | no | differentiation | before E10.5 |
| Rybp | - | yes | down | not detected | before E7.5 |
| Trrap/p400 Complex | |||||
| Ep400 | - | no | no | differentiation | ∼E9.5 |
| Trrap | - | no | no | differentiation | ∼E3.5 |
| LSD1 Complex | |||||
| Lsd1 | - | no | no | reduced proliferation | before E7.5 |
| Zmym2 | - | no | no | - | - |
| Rcor2 | - | yes | down | - | - |
| Transcription Factors | |||||
| Sall4 | - | yes | no | differentiation prone | before E5.5 |
| Sall1 | - | yes | no | not detected | peri-natal |
| Zfp219 | - | yes | down | differentiation | - |
| Arid3b | - | no | no | - | before E11.5 |
| Wdr5 | - | no | down | differentiation | - |
| Zfp462 | - | yes | down | - | - |
| Mga | - | yes | no | differentiation | - |
| Sox2 | yes | yes | down | differentiation | before E7.5 |
| Ubp1 | - | no | no | - | ∼E11.5 |
| Nac1 | yes | no | no | differentiation | viable |
| Hcfc1 | - | no | no | differentiation | - |
| Hells | - | no | down | - | - |
| Rbpj | - | yes | no | not detected | before E10.5 |
| Tcfcp2l1 | yes | yes | down | reduced proliferation | - |
| Requiem | - | no | no | - | - |
| Esrrb | yes | yes | down | differentiation | ∼E10.5 |
| Pml | - | yes | down | - | viable |
| Foxp4 | - | no | no | - | ∼E12.5 |
| Ctbp2 | - | no | no | increased self-renewal | ∼E10.5 |
| Dax1 | yes | yes | down | differentiation | - |
| Zfp143 | yes | yes | no | differentiation | - |
| Klf5 | yes | yes | down | differentiation | before E8.5 |
| Other | |||||
| Rif1 | - | yes | down | differentiation | - |
| L1td1 | - | no | no | - | - |
| Akap8 | - | no | no | - | - |
| Msh2 | - | yes | no | not detected | not detected |
| Smc1a | - | no | no | differentiation | - |
| Ogt | - | yes | no | lethality | ∼E5 |
| Rbm14 | - | yes | down | - | - |
| Frg1 | - | no | no | - | - |
| Emsy | - | no | no | - | - |
| 0610010K14Rik | - | no | no | - | - |
| 281047O19Rik | - | no | no | - | - |
| Zcchc8 | - | no | no | - | - |
a
Criteria and references for promoter co-occupancy with Oct4 and encoding gene bound by Oct4 are in the Experimental Procedures.
b
Expression change upon Oct4 depletion in ZHBTc4 ESCs; for criteria see Experimental Procedures.
c
ESC phenotype upon knockout, or knockdown by RNA interference; references in Supplemental Data.
d
Developmental phenotype upon knockout; references in Supplemental Data.