TCF21.H12INVIVO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TCF21.H12INVIVO.1.SM.B
Gene (human)	TCF21 (GeneCards)
Gene synonyms (human)	BHLHA23, POD1
Gene (mouse)	Tcf21
Gene synonyms (mouse)	Pod1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	12
Consensus	ndvCATATGGYv
GC content	44.38%
Information content (bits; total / per base)	14.166 / 1.18
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	4519

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Human	3 (9)	0.816	0.826	0.593	0.612	0.693	0.702	1.586	1.632	85.31	105.77

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.883	0.837	0.799	0.76	0.692	0.679
Overall, 5 experiments	best	0.995	0.993	0.947	0.939	0.792	0.807
Methyl HT-SELEX, 1 experiments	median	0.995	0.993	0.947	0.939	0.792	0.807
Methyl HT-SELEX, 1 experiments	best	0.995	0.993	0.947	0.939	0.792	0.807
Non-Methyl HT-SELEX, 4 experiments	median	0.807	0.776	0.711	0.691	0.629	0.627
Non-Methyl HT-SELEX, 4 experiments	best	0.966	0.955	0.902	0.881	0.774	0.771

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.767	0.283	0.802	0.458

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	Tal-related {1.2.3} (TFClass)
TF subfamily	MESP {1.2.3.3} (TFClass)
TFClass ID	TFClass: 1.2.3.3.5
HGNC	HGNC:11632
MGI	MGI:1202715
EntrezGene (human)	GeneID:6943 (SSTAR profile)
EntrezGene (mouse)	GeneID:21412 (SSTAR profile)
UniProt ID (human)	TCF21_HUMAN
UniProt ID (mouse)	TCF21_MOUSE
UniProt AC (human)	O43680 (TFClass)
UniProt AC (mouse)	O35437 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	3 human, 0 mouse
HT-SELEX	4
Methyl-HT-SELEX	1

PCM	TCF21.H12INVIVO.1.SM.B.pcm
PWM	TCF21.H12INVIVO.1.SM.B.pwm
PFM	TCF21.H12INVIVO.1.SM.B.pfm
Alignment	TCF21.H12INVIVO.1.SM.B.words.tsv
Threshold to P-value map	TCF21.H12INVIVO.1.SM.B.thr
Motif in other formats
JASPAR format	TCF21.H12INVIVO.1.SM.B_jaspar_format.txt
MEME format	TCF21.H12INVIVO.1.SM.B_meme_format.meme
Transfac format	TCF21.H12INVIVO.1.SM.B_transfac_format.txt
Homer format	TCF21.H12INVIVO.1.SM.B_homer_format_0.001.txt TCF21.H12INVIVO.1.SM.B_homer_format_0.0005.txt TCF21.H12INVIVO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	816.0	1072.0	1306.0	1325.0
02	1825.75	451.75	1544.75	696.75
03	1873.0	1383.0	1088.0	175.0
04	0.0	4519.0	0.0	0.0
05	4453.0	0.0	66.0	0.0
06	0.0	0.0	178.0	4341.0
07	4361.0	158.0	0.0	0.0
08	0.0	0.0	0.0	4519.0
09	0.0	0.0	4519.0	0.0
10	0.0	0.0	3667.0	852.0
11	124.0	1427.0	48.0	2920.0
12	1098.75	852.75	1785.75	781.75

PFM

	A	C	G	T
01	0.181	0.237	0.289	0.293
02	0.404	0.1	0.342	0.154
03	0.414	0.306	0.241	0.039
04	0.0	1.0	0.0	0.0
05	0.985	0.0	0.015	0.0
06	0.0	0.0	0.039	0.961
07	0.965	0.035	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.0	1.0	0.0
10	0.0	0.0	0.811	0.189
11	0.027	0.316	0.011	0.646
12	0.243	0.189	0.395	0.173

PWM

	A	C	G	T
01	-0.325	-0.052	0.145	0.159
02	0.479	-0.914	0.312	-0.482
03	0.505	0.202	-0.038	-1.855
04	-6.288	1.385	-6.288	-6.288
05	1.37	-6.288	-2.811	-6.288
06	-6.288	-6.288	-1.838	1.345
07	1.349	-1.956	-6.288	-6.288
08	-6.288	-6.288	-6.288	1.385
09	-6.288	-6.288	1.385	-6.288
10	-6.288	-6.288	1.176	-0.282
11	-2.195	0.233	-3.118	0.948
12	-0.028	-0.281	0.457	-0.367

Standard thresholds

P-value	Threshold
0.001	1.335055
0.0005	2.820385
0.0001	6.645225