TCF21.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TCF21.H12INVIVO.0.PS.A
Gene (human)	TCF21 (GeneCards)
Gene synonyms (human)	BHLHA23, POD1
Gene (mouse)	Tcf21
Gene synonyms (mouse)	Pod1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	dvvvCAGCTGSv
GC content	57.32%
Information content (bits; total / per base)	12.263 / 1.022
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1000

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)	0.928	0.934	0.857	0.864	0.896	0.902	3.281	3.356	557.0	712.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.872	0.826	0.777	0.741	0.67	0.662
Overall, 5 experiments	best	0.924	0.891	0.872	0.831	0.739	0.732
Methyl HT-SELEX, 1 experiments	median	0.924	0.891	0.872	0.831	0.739	0.732
Methyl HT-SELEX, 1 experiments	best	0.924	0.891	0.872	0.831	0.739	0.732
Non-Methyl HT-SELEX, 4 experiments	median	0.793	0.753	0.697	0.674	0.619	0.615
Non-Methyl HT-SELEX, 4 experiments	best	0.899	0.861	0.836	0.793	0.72	0.706

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.708	0.135	0.762	0.463

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.0.PS.A.pcm
PWM	TCF21.H12INVIVO.0.PS.A.pwm
PFM	TCF21.H12INVIVO.0.PS.A.pfm
Alignment	TCF21.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	TCF21.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	TCF21.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	TCF21.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	TCF21.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	TCF21.H12INVIVO.0.PS.A_homer_format_0.001.txt TCF21.H12INVIVO.0.PS.A_homer_format_0.0005.txt TCF21.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	372.0	126.0	355.0	147.0
02	381.0	191.0	299.0	129.0
03	557.0	197.0	200.0	46.0
04	516.0	200.0	227.0	57.0
05	1.0	998.0	1.0	0.0
06	995.0	0.0	2.0	3.0
07	24.0	13.0	878.0	85.0
08	64.0	920.0	10.0	6.0
09	8.0	3.0	1.0	988.0
10	3.0	1.0	983.0	13.0
11	8.0	192.0	642.0	158.0
12	401.0	192.0	247.0	160.0

PFM

	A	C	G	T
01	0.372	0.126	0.355	0.147
02	0.381	0.191	0.299	0.129
03	0.557	0.197	0.2	0.046
04	0.516	0.2	0.227	0.057
05	0.001	0.998	0.001	0.0
06	0.995	0.0	0.002	0.003
07	0.024	0.013	0.878	0.085
08	0.064	0.92	0.01	0.006
09	0.008	0.003	0.001	0.988
10	0.003	0.001	0.983	0.013
11	0.008	0.192	0.642	0.158
12	0.401	0.192	0.247	0.16

PWM

	A	C	G	T
01	0.395	-0.678	0.349	-0.526
02	0.419	-0.267	0.178	-0.655
03	0.797	-0.236	-0.221	-1.663
04	0.721	-0.221	-0.096	-1.455
05	-4.525	1.379	-4.525	-4.982
06	1.376	-4.982	-4.213	-3.975
07	-2.281	-2.839	1.251	-1.066
08	-1.343	1.298	-3.066	-3.484
09	-3.253	-3.975	-4.525	1.369
10	-3.975	-4.525	1.364	-2.839
11	-3.253	-0.262	0.939	-0.455
12	0.47	-0.262	-0.012	-0.442

Standard thresholds

P-value	Threshold
0.001	3.80826
0.0005	4.941985
0.0001	7.439305