TCF7.H12CORE.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TCF7.H12CORE.0.PSM.A
Gene (human)	TCF7 (GeneCards)
Gene synonyms (human)	TCF1
Gene (mouse)	Tcf7
Gene synonyms (mouse)	Tcf-1, Tcf1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	15
Consensus	nvvvRSWWSAAARvn
GC content	44.99%
Information content (bits; total / per base)	10.916 / 0.728
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	989

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	10 (59)	0.827	0.902	0.721	0.854	0.833	0.9	2.811	3.769	50.125	354.337
Mouse	5 (32)	0.797	0.838	0.696	0.746	0.808	0.843	2.759	3.053	79.333	207.347

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.9	0.876	0.737	0.738	0.608	0.638
Overall, 2 experiments	best	0.92	0.901	0.751	0.755	0.612	0.647
Methyl HT-SELEX, 1 experiments	median	0.92	0.901	0.751	0.755	0.612	0.647
Methyl HT-SELEX, 1 experiments	best	0.92	0.901	0.751	0.755	0.612	0.647
Non-Methyl HT-SELEX, 1 experiments	median	0.879	0.851	0.723	0.72	0.604	0.629
Non-Methyl HT-SELEX, 1 experiments	best	0.879	0.851	0.723	0.72	0.604	0.629

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.544	0.126	0.385	0.133

TF superclass	Other all-alpha-helical DNA-binding domains {4} (TFClass)
TF class	High-mobility group (HMG) domain factors {4.1} (TFClass)
TF family	TCF7-related {4.1.3} (TFClass)
TF subfamily	{4.1.3.0} (TFClass)
TFClass ID	TFClass: 4.1.3.0.1
HGNC	HGNC:11639
MGI	MGI:98507
EntrezGene (human)	GeneID:6932 (SSTAR profile)
EntrezGene (mouse)	GeneID:21414 (SSTAR profile)
UniProt ID (human)	TCF7_HUMAN
UniProt ID (mouse)	TCF7_MOUSE
UniProt AC (human)	P36402 (TFClass)
UniProt AC (mouse)	Q00417 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	10 human, 5 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	TCF7.H12CORE.0.PSM.A.pcm
PWM	TCF7.H12CORE.0.PSM.A.pwm
PFM	TCF7.H12CORE.0.PSM.A.pfm
Alignment	TCF7.H12CORE.0.PSM.A.words.tsv
Threshold to P-value map	TCF7.H12CORE.0.PSM.A.thr
Motif in other formats
JASPAR format	TCF7.H12CORE.0.PSM.A_jaspar_format.txt
MEME format	TCF7.H12CORE.0.PSM.A_meme_format.meme
Transfac format	TCF7.H12CORE.0.PSM.A_transfac_format.txt
Homer format	TCF7.H12CORE.0.PSM.A_homer_format_0.001.txt TCF7.H12CORE.0.PSM.A_homer_format_0.0005.txt TCF7.H12CORE.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	357.0	208.0	266.0	158.0
02	312.0	318.0	240.0	119.0
03	287.0	422.0	170.0	110.0
04	265.0	446.0	217.0	61.0
05	763.0	36.0	101.0	89.0
06	29.0	646.0	306.0	8.0
07	691.0	25.0	2.0	271.0
08	118.0	23.0	63.0	785.0
09	55.0	707.0	207.0	20.0
10	955.0	6.0	6.0	22.0
11	856.0	42.0	89.0	2.0
12	921.0	5.0	46.0	17.0
13	148.0	82.0	741.0	18.0
14	262.0	217.0	454.0	56.0
15	276.0	279.0	304.0	130.0

PFM

	A	C	G	T
01	0.361	0.21	0.269	0.16
02	0.315	0.322	0.243	0.12
03	0.29	0.427	0.172	0.111
04	0.268	0.451	0.219	0.062
05	0.771	0.036	0.102	0.09
06	0.029	0.653	0.309	0.008
07	0.699	0.025	0.002	0.274
08	0.119	0.023	0.064	0.794
09	0.056	0.715	0.209	0.02
10	0.966	0.006	0.006	0.022
11	0.866	0.042	0.09	0.002
12	0.931	0.005	0.047	0.017
13	0.15	0.083	0.749	0.018
14	0.265	0.219	0.459	0.057
15	0.279	0.282	0.307	0.131

PWM

	A	C	G	T
01	0.365	-0.172	0.073	-0.444
02	0.231	0.25	-0.03	-0.724
03	0.148	0.532	-0.371	-0.801
04	0.069	0.587	-0.13	-1.379
05	1.122	-1.887	-0.885	-1.01
06	-2.092	0.956	0.212	-3.243
07	1.023	-2.232	-4.203	0.091
08	-0.732	-2.31	-1.347	1.151
09	-1.479	1.046	-0.176	-2.439
10	1.346	-3.473	-3.473	-2.351
11	1.237	-1.739	-1.01	-4.203
12	1.31	-3.612	-1.652	-2.588
13	-0.509	-1.09	1.093	-2.536
14	0.058	-0.13	0.605	-1.462
15	0.109	0.12	0.205	-0.637

Standard thresholds

P-value	Threshold
0.001	4.52121
0.0005	5.41471
0.0001	7.24371