TCF7.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TCF7.H12INVITRO.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	11
Consensus	ndSATCAAASv
GC content	39.63%
Information content (bits; total / per base)	11.804 / 1.073
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9283

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)	0.816	0.9	0.7	0.825	0.803	0.883	2.539	3.386	44.959	285.638
Mouse	5 (32)	0.757	0.792	0.656	0.684	0.737	0.775	2.375	2.515	81.528	203.357

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.939	0.922	0.786	0.783	0.65	0.673
Overall, 2 experiments	best	0.95	0.937	0.789	0.792	0.652	0.676
Methyl HT-SELEX, 1 experiments	median	0.95	0.937	0.789	0.792	0.648	0.676
Methyl HT-SELEX, 1 experiments	best	0.95	0.937	0.789	0.792	0.648	0.676
Non-Methyl HT-SELEX, 1 experiments	median	0.927	0.906	0.782	0.775	0.652	0.671
Non-Methyl HT-SELEX, 1 experiments	best	0.927	0.906	0.782	0.775	0.652	0.671

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.603	0.04	0.15	0.057

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.H12INVITRO.0.PSM.A.pcm
PWM	TCF7.H12INVITRO.0.PSM.A.pwm
PFM	TCF7.H12INVITRO.0.PSM.A.pfm
Alignment	TCF7.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	TCF7.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	TCF7.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	TCF7.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	TCF7.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	TCF7.H12INVITRO.0.PSM.A_homer_format_0.001.txt TCF7.H12INVITRO.0.PSM.A_homer_format_0.0005.txt TCF7.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3196.25	1906.25	2202.25	1978.25
02	4984.75	863.75	1776.75	1657.75
03	164.0	4519.0	4304.0	296.0
04	8029.0	104.0	193.0	957.0
05	81.0	25.0	143.0	9034.0
06	1.0	8901.0	374.0	7.0
07	9190.0	2.0	25.0	66.0
08	9121.0	90.0	27.0	45.0
09	8089.0	199.0	573.0	422.0
10	686.75	1483.75	6784.75	327.75
11	2022.25	2099.25	3871.25	1290.25

PFM

	A	C	G	T
01	0.344	0.205	0.237	0.213
02	0.537	0.093	0.191	0.179
03	0.018	0.487	0.464	0.032
04	0.865	0.011	0.021	0.103
05	0.009	0.003	0.015	0.973
06	0.0	0.959	0.04	0.001
07	0.99	0.0	0.003	0.007
08	0.983	0.01	0.003	0.005
09	0.871	0.021	0.062	0.045
10	0.074	0.16	0.731	0.035
11	0.218	0.226	0.417	0.139

PWM

	A	C	G	T
01	0.32	-0.197	-0.052	-0.16
02	0.764	-0.987	-0.267	-0.336
03	-2.637	0.666	0.617	-2.053
04	1.24	-3.085	-2.476	-0.884
05	-3.328	-4.444	-2.772	1.358
06	-6.562	1.344	-1.82	-5.522
07	1.375	-6.296	-4.444	-3.527
08	1.368	-3.226	-4.374	-3.894
09	1.248	-2.446	-1.396	-1.7
10	-1.215	-0.447	1.072	-1.951
11	-0.138	-0.1	0.511	-0.586

Standard thresholds

P-value	Threshold
0.001	4.015505
0.0005	5.12951
0.0001	7.331205