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Table 2 Common transcriptional factors for proteomics and expression datasets

From: Integrated network analysis of transcriptomic and proteomic data in psoriasis

Transcriptomics Proteomics
Entrez ID Gene Over-connection P-Value Hidden nodes P-Value Entrez ID Gene Over-connection P-Value Hidden nodes P-Value
6772 STAT1 4.081E-28 1.027E-22 2736 GLI2 4.318E-03 2.080E-04
3659 IRF1 1.344E-22 3.203E-19 6772 STAT1 2.234E-04 1.293E-04
4790 NFKB1 3.677E-13 2.523E-25 3091 HIF1A 2.345E-03 2.402E-04
5970 RELA 3.726E-14 4.120E-24 6778 STAT6 9.420E-04 2.080E-04
5966 REL 4.844E-17 3.580E-16 7392 USF2 1.507E-04 -
6688 SPI1 7.019E-13 1.245E-16 6774 STAT3 2.542E-05 -
3394 IRF8 7.594E-12 1.903E-16 6776 STAT5A - 2.820E-05
1051 CEBPB 1.590E-12 1.271E-15 668 FOXL2 1.100E-02 1.388E-03
2908 NR3C1 2.307E-05 1.504E-17 2078 ERG 2.386E-04 1.388E-03
10379 IRF9 8.193E-05 4.037E-17 6777 STAT5B - 2.820E-05
3660 IRF2 3.794E-12 3.914E-09 7020 TFAP2A 4.806E-04 -
6434 SFRS10 - 4.420E-17 5371 PML 1.177E-03 -
6775 STAT4 1.637E-03 5.842E-16 2735 GLI1 1.053E-02 -
6667 SP1 5.508E-12 2.013E-07 6667 SP1 3.269E-05 -
6777 STAT5B 2.725E-04 2.063E-15 3725 JUN 1.198E-03 -
3725 JUN 2.182E-11 7.521E-11 8462 KLF11 6.710E-03 2.775E-03
6774 STAT3 9.643E-10 2.114E-11 2099 ESR1 1.650E-02 -
7157 TP53 9.352E-10 7.171E-08 10538 BATF 1.765E-02 -
30009 TBX21 5.119E-03 1.594E-14 30009 TBX21 - 1.911E-04
1874 E2F4 1.537E-09 8.737E-07 7421 VDR - 1.693E-04
Additional TFs identified by subnetwork-based analysis
4609 MYC 2.680E-69 - 4609 MYC 1.120E-07 -
     5966 REL 1.120E-07 -
     5970 RELA 1.120E-07 -
     4790 NFKB1 1.120E-07 -
  1. Some genes were considered significant only by one of two topological approaches (this is evident for proteomics data, where low number of proteins limits capabilities of topological analysis). Missing p-value means that correspondent gene has not passed 0.05 significance threshold and has been listed among top factors only due to low p-value for other topological approach. Only one p-value was determined in the case of network analysis (enrichment p-value for the network built around seed transcription factor). Transcriptional factors common for proteomics and transcriptomics level are in bold text.