Skip to main content

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.