Table 5 GO-based Biological Process annotation
From: Inferring modules from human protein interactome classes
CFinder | module ID | ||||
|---|---|---|---|---|---|
High | Int-2 | CHAF1A ASF1A ASF1B CHAF1B HIST1H3E | nucleosome assembly ⋆ | 5/5 | 1.23e-10 |
Int-3 | CENPB TIGD1 TIGD6 JRKL TIGD7 | regulation of transcription | 5/5 | 0.00040 | |
Int-4 | COPE COPA COPB COPZ1 COPG COPG1 COPG2 COPZ2 COPB2 | intracellular protein transport | 9/9 | 6.97e-12 | |
Int-7 | NFKBIB POLR2E POLR3F POLR1D POLR1C POLR2L POLR1A POLR2H POLR2C POLR3G POLR3A POLR1B | transcription ◆ | 12/17 | 6.01e-08 | |
Lit-2 | CHAF1A ASF1A ASF1B CHAF1B HIST1H3E | nucleosome assembly ⋆ | 5/5 | 1.23e-10 | |
Lit-5 | POLR2A POLR2C POLR2D POLR2E POLR2G POLR2H POLR2L MED9 | transcription ◆ | 8/9 | 8.88e-07 | |
Lit-9 | LSM6 LSM5 LSM4 LSM1 LSM3 LSM7 LSM2 SMN1 | RNA splicing | 8/8 | 7.48e-17 | |
Lit-11 | EXOSC8 EXOSC6 KIAA1008 EXOSC7 EXOSC9 EXOSC4 EXOSC5 | rRNA processing | 7/10 | 4.73e-17 | |
Ortho-8 | POLR3F POLR3G POLR3A POLR1A POLR1D POLR2E POLR2H POLR2L POLR1B POLR1C | transcription ◆ | 10/15 | 2.95e-06 | |
Ortho-12 | PSMA8 PSMA2 PSMB1 PSMB2 PSMB3 | ubiquitin-dependent ● protein catabolic process | 5/10 | 9.49e-07 | |
Medium | Int-18 | PSMC6 PSMC2 TRAF6 PSMC1 PSMC4 PSMD14 PSMB2 PSMD3 PSMC3 | protein catabolic process ● | 9/18 | 1.12e-10 |
Ortho-18 | PSMC6 PSMC2 PSMC1 PSMC4 PSMD14 PSMB2 PSMD3 PSMC3 | protein catabolic process ● | 8/17 | 2.87e-09 | |
Low | Int-13 | TBNTAF1 TAF2TAF7 TAF10 TAF11 TAF12 TAF13 | regulation of transcription, DNA-dependent | 8/13 | 3.35e-07 |
Lit-4 | HTATIP SRCAP RUVBL2 EPC2 ING3 C20orf20 EPC1 YEATS4 RUVBL1 | chromatin modification | 9/16 | 6.61e-16 | |
Lit-14 | TBN TAF1 TAF2 TAF4 TAF5 TAF6 TAF7 TAF9 TAF10 TAF11 TAF12 | regulation of transcription, DNA-dependent | 7/11 | 3.34e-06 | |
Ortho-7 | RPP30 EXOSC3 SBDS EXOSC4 EXOSC5 IMP4 | ncRNA processing | 6/8 | 2.53e-12 | |
MCODE | module ID | Protein IDs | Biological Process | cluster freq. | p-value |
High | Int-5 | COPZ2 COPB COPA COPG1 COPG2 COPB2 | intracellular protein transport | 6/9 | 6.97e-12 |
Lit-4 | RPP14 RPP38 RPP30 RPP25 | tRNA processing | 4/7 | 5.17e-10 | |
Ortho-4 | COPB COPZ1 COPG2 COPB2 | intra-Golgi vesicle-mediated transport | 4/12 | 5.24e-10 | |
Ortho-5 | No significant terms | ||||
Low | Lit-11 | CRSP6 CRSP8 THRAP6 CRSP2 | transcription initiation from RNA polymerase II promoter | 4/9 | 1.92e-08 |
Lit-13 | TAF12 BRMS1L SIN3A TAF7 TAF1 HDAC2 TAF10 TAF11 TBN TAF2 RBBP4 RBBP7 SAP30 | regulation of transcription, DNA-dependent | 13/22 | 7.12e-12 | |
Ortho-2 | - | NA | - | - | |
Ortho-10 | FIP1L1 CPSF4 SSU72 CPSF1 PAPOLG | mRNA processing | 5/11 | 5.71e-09 |