TCF21.H12RSNP.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TCF21.H12RSNP.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	13
Consensus	dvRvvvCAGCTGK
GC content	57.88%
Information content (bits; total / per base)	12.561 / 0.966
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	0.935	0.856	0.864	0.895	0.904	3.317	3.38	536.076	664.387

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.875	0.831	0.775	0.742	0.67	0.662
Overall, 5 experiments	best	0.924	0.893	0.856	0.819	0.733	0.724
Methyl HT-SELEX, 1 experiments	median	0.924	0.893	0.856	0.819	0.733	0.724
Methyl HT-SELEX, 1 experiments	best	0.924	0.893	0.856	0.819	0.733	0.724
Non-Methyl HT-SELEX, 4 experiments	median	0.771	0.733	0.683	0.661	0.61	0.607
Non-Methyl HT-SELEX, 4 experiments	best	0.899	0.859	0.824	0.783	0.713	0.699

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.731	0.113	0.768	0.512

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.H12RSNP.0.PS.A.pcm
PWM	TCF21.H12RSNP.0.PS.A.pwm
PFM	TCF21.H12RSNP.0.PS.A.pfm
Alignment	TCF21.H12RSNP.0.PS.A.words.tsv
Threshold to P-value map	TCF21.H12RSNP.0.PS.A.thr
Motif in other formats
JASPAR format	TCF21.H12RSNP.0.PS.A_jaspar_format.txt
MEME format	TCF21.H12RSNP.0.PS.A_meme_format.meme
Transfac format	TCF21.H12RSNP.0.PS.A_transfac_format.txt
Homer format	TCF21.H12RSNP.0.PS.A_homer_format_0.001.txt TCF21.H12RSNP.0.PS.A_homer_format_0.0005.txt TCF21.H12RSNP.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	366.0	121.0	337.0	176.0
02	321.0	158.0	417.0	104.0
03	475.0	86.0	408.0	31.0
04	389.0	228.0	287.0	96.0
05	506.0	188.0	157.0	149.0
06	401.0	281.0	276.0	42.0
07	8.0	987.0	5.0	0.0
08	989.0	1.0	5.0	5.0
09	5.0	18.0	884.0	93.0
10	45.0	943.0	9.0	3.0
11	7.0	4.0	0.0	989.0
12	2.0	0.0	984.0	14.0
13	3.0	185.0	556.0	256.0

PFM

	A	C	G	T
01	0.366	0.121	0.337	0.176
02	0.321	0.158	0.417	0.104
03	0.475	0.086	0.408	0.031
04	0.389	0.228	0.287	0.096
05	0.506	0.188	0.157	0.149
06	0.401	0.281	0.276	0.042
07	0.008	0.987	0.005	0.0
08	0.989	0.001	0.005	0.005
09	0.005	0.018	0.884	0.093
10	0.045	0.943	0.009	0.003
11	0.007	0.004	0.0	0.989
12	0.002	0.0	0.984	0.014
13	0.003	0.185	0.556	0.256

PWM

	A	C	G	T
01	0.379	-0.718	0.297	-0.348
02	0.248	-0.455	0.509	-0.867
03	0.639	-1.054	0.487	-2.04
04	0.44	-0.091	0.137	-0.946
05	0.702	-0.283	-0.461	-0.513
06	0.47	0.116	0.098	-1.75
07	-3.253	1.368	-3.622	-4.982
08	1.37	-4.525	-3.622	-3.622
09	-3.622	-2.546	1.258	-0.977
10	-1.684	1.323	-3.156	-3.975
11	-3.362	-3.783	-4.982	1.37
12	-4.213	-4.982	1.365	-2.773
13	-3.975	-0.299	0.796	0.024

Standard thresholds

P-value	Threshold
0.001	3.69351
0.0005	4.79456
0.0001	7.291285