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Table 3 Differentially expressed genes of transcription factors (TF) and over-representation (over-rep) of TF binding sequences within each gene cluster

From: Transcriptional regulation of gene expression clusters in motor neurons following spinal cord injury

  DEG of TF   
Clusters Gene ID Protein ID TF over-rep Motifs
Cluster 1 Gtf2e2 T2EB E2F1 E2F1_Q3_01
  Nfyc NFYC FOXO1 E2F1_Q2_01
  Olig1 OLIG1   E2F1_Q6_01
  Pbx3 PBX3   FOXO1_01
  Tfb2m TFB2M   FOXO1_02
Cluster 2 E2f5 E2F5 FOXO1 FOXO1_01
  Morf4l1 MO4L1   FOXO1_02
Cluster 3 Aatf AATF FOXO1 FOXO1_01
  Btf3 BTF3   FOXO1_02
  Klf10 KLF10   
Cluster 4 Arid1b ARID1B E2F1 E2F1_Q3_01
  Gtf2ird1 GT2D1 FOXO1 FOXO1_01
  Irf9 IRF9   FOXO1_02
Cluster 5 Atf3 ATF3 ATF4 ATF4_Q2
  Myc MYC   
  Tceb3 ELOA1   
  Ybx1 YBX1   
Cluster 6    ATF4 ATF4_Q2
    E2F1 E2F1_Q3
    MYC MYC_Q2
    SP1 SP1_01
     SP1_Q2_01
     SP1_Q4_01
     SP1_Q6
     SP1_Q6_01
Cluster 7 E2f1 E2F1 ATF3 ATF3_Q6
  Foxo1 FOXO1 ATF4 ATF4_Q2
  Gtf3c1 TF3C1 E2F1 E2F1_Q3
  Sp1 SP1 MYC E2F1_Q3_01
    SP1 E2F1_Q4
     E2F1_Q4_01
     E2F1_Q6
     E2F1_Q6_01
     MYC_Q2
     SP1_01
     SP1_Q2_01
     SP1_Q4_01
     SP1_Q6
     SP1_Q6_01
Cluster 8 Hsf4 HSF4 ATF3 ATF3_Q6
  Tbx3 TBX3 ATF4 ATF4_Q2
    E2F1 E2F1_Q3
    MYC E2F1_Q3_01
    SP1 E2F1_Q6
     MYC_Q2
     SP1_01
     SP1_Q2_01
     SP1_Q4_01
     SP1_Q6
     SP1_Q6_01
Cluster 9 Arid1b ARID1B ATF3 ATF3_Q6
  Nr2f2 COT2 E2F1 E2F1_Q3
  Pou2f3 PO2F3 SP1 E2F1_Q6
  Runx3 RUNX3   SP1_01
     SP1_Q2_01
     SP1_Q4_01
     SP1_Q6
     SP1_Q6_01
Cluster 10 Atf4 ATF4 ATF4 ATF4_Q2
  Srebf1 SRBP1 E2F1 E2F1_Q3
    MYC E2F1_Q3_01
    SP1 E2F1_Q4
     E2F1_Q4_01
     E2F1_Q6
     E2F1_Q6_01
     MYC_Q2
     SP1_01
     SP1_Q2_01
     SP1_Q4_01
     SP1_Q6
     SP1_Q6_01
Cluster 11 Dmrt1 DMRT1 AFT3 ATF3_Q6
  Gtf2h4 GTF2H4 E2F1 E2F1_Q3
  Zeb1 ZEB1 MYC MYC_Q2
    SP1 SP1_01
     SP1_Q2_01
     SP1_Q4_01
     SP1_Q6
     SP1_Q6_01
Cluster 12 Nfia NFIA AFT3 ATF3_Q6
  Nkx6-2 NKX6-2 E2F1 E2F1_Q3_01
    FOXO1 E2F1_Q4_01
     E2F1_Q6
     E2F1_Q6_01
     FOXO1_01
  1. DEG TF: Differentially expressed genes (DEG) of transcription factors (TF). Genes of TF with annotated TRANSFAC motifs are highlighted in boldface. TF over-rep: TFs with over-represented binding sites in the set of genes belonging to the specified gene cluster. Motifs: Individual TRANSFAC motifs with Z scores above 3 based on ASAP conducted on the set of genes belonging to the specified gene cluster.