ITF2.H12RSNP.0.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ITF2.H12RSNP.0.S.B
Gene (human)	TCF4 (GeneCards)
Gene synonyms (human)	BHLHB19, ITF2, SEF2
Gene (mouse)	Tcf4
Gene synonyms (mouse)	Itf2, Sef2
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	17
Consensus	nvSWGGTGCAGGTGYdn
GC content	60.13%
Information content (bits; total / per base)	18.458 / 1.086
Data sources	HT-SELEX
Aligned words	176

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	8 (55)	0.846	0.893	0.661	0.728	0.739	0.873	1.989	3.205	76.215	121.174

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.973	0.951	0.96	0.936	0.915	0.889
Overall, 6 experiments	best	0.996	0.992	0.994	0.989	0.982	0.975
Methyl HT-SELEX, 1 experiments	median	0.973	0.952	0.962	0.937	0.921	0.894
Methyl HT-SELEX, 1 experiments	best	0.973	0.952	0.962	0.937	0.921	0.894
Non-Methyl HT-SELEX, 5 experiments	median	0.972	0.951	0.959	0.934	0.91	0.883
Non-Methyl HT-SELEX, 5 experiments	best	0.996	0.992	0.994	0.989	0.982	0.975

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.011	13.672	0.143	0.125

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	E2A {1.2.1} (TFClass)
TF subfamily	E2A-like {1.2.1.0} (TFClass)
TFClass ID	TFClass: 1.2.1.0.2
HGNC	HGNC:11634
MGI	MGI:98506
EntrezGene (human)	GeneID:6925 (SSTAR profile)
EntrezGene (mouse)	GeneID:21413 (SSTAR profile)
UniProt ID (human)	ITF2_HUMAN
UniProt ID (mouse)	ITF2_MOUSE
UniProt AC (human)	P15884 (TFClass)
UniProt AC (mouse)	Q60722 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	8 human, 0 mouse
HT-SELEX	5
Methyl-HT-SELEX	1

PCM	ITF2.H12RSNP.0.S.B.pcm
PWM	ITF2.H12RSNP.0.S.B.pwm
PFM	ITF2.H12RSNP.0.S.B.pfm
Alignment	ITF2.H12RSNP.0.S.B.words.tsv
Threshold to P-value map	ITF2.H12RSNP.0.S.B.thr
Motif in other formats
JASPAR format	ITF2.H12RSNP.0.S.B_jaspar_format.txt
MEME format	ITF2.H12RSNP.0.S.B_meme_format.meme
Transfac format	ITF2.H12RSNP.0.S.B_transfac_format.txt
Homer format	ITF2.H12RSNP.0.S.B_homer_format_0.001.txt ITF2.H12RSNP.0.S.B_homer_format_0.0005.txt ITF2.H12RSNP.0.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	31.5	51.5	51.5	41.5
02	32.0	50.0	68.0	26.0
03	1.0	124.0	41.0	10.0
04	122.0	13.0	18.0	23.0
05	7.0	5.0	142.0	22.0
06	11.0	1.0	148.0	16.0
07	7.0	19.0	0.0	150.0
08	9.0	8.0	159.0	0.0
09	0.0	176.0	0.0	0.0
10	176.0	0.0	0.0	0.0
11	0.0	32.0	144.0	0.0
12	0.0	32.0	144.0	0.0
13	0.0	0.0	0.0	176.0
14	0.0	0.0	176.0	0.0
15	0.0	49.0	6.0	121.0
16	28.75	15.75	48.75	82.75
17	33.75	34.75	41.75	65.75

PFM

	A	C	G	T
01	0.179	0.293	0.293	0.236
02	0.182	0.284	0.386	0.148
03	0.006	0.705	0.233	0.057
04	0.693	0.074	0.102	0.131
05	0.04	0.028	0.807	0.125
06	0.063	0.006	0.841	0.091
07	0.04	0.108	0.0	0.852
08	0.051	0.045	0.903	0.0
09	0.0	1.0	0.0	0.0
10	1.0	0.0	0.0	0.0
11	0.0	0.182	0.818	0.0
12	0.0	0.182	0.818	0.0
13	0.0	0.0	0.0	1.0
14	0.0	0.0	1.0	0.0
15	0.0	0.278	0.034	0.688
16	0.163	0.089	0.277	0.47
17	0.192	0.197	0.237	0.374

PWM

	A	C	G	T
01	-0.323	0.153	0.153	-0.057
02	-0.308	0.124	0.425	-0.507
03	-2.983	1.018	-0.069	-1.389
04	1.001	-1.153	-0.853	-0.623
05	-1.698	-1.974	1.152	-0.665
06	-1.304	-2.983	1.193	-0.963
07	-1.698	-0.803	-3.556	1.206
08	-1.482	-1.584	1.264	-3.556
09	-3.556	1.365	-3.556	-3.556
10	1.365	-3.556	-3.556	-3.556
11	-3.556	-0.308	1.166	-3.556
12	-3.556	-0.308	1.166	-3.556
13	-3.556	-3.556	-3.556	1.365
14	-3.556	-3.556	1.365	-3.556
15	-3.556	0.105	-1.826	0.993
16	-0.411	-0.977	0.1	0.618
17	-0.257	-0.228	-0.051	0.392

Standard thresholds

P-value	Threshold
0.001	1.72716
0.0005	3.04826
0.0001	5.82121