ITF2.H12INVITRO.0.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ITF2.H12INVITRO.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	16
Consensus	nbdKKYGCAGGTGYdn
GC content	58.24%
Information content (bits; total / per base)	15.282 / 0.955
Data sources	HT-SELEX
Aligned words	270

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)	0.852	0.899	0.674	0.743	0.773	0.88	2.152	3.196	83.796	171.77

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.975	0.954	0.969	0.947	0.931	0.907
Overall, 6 experiments	best	0.996	0.993	0.995	0.991	0.99	0.986
Methyl HT-SELEX, 1 experiments	median	0.975	0.954	0.97	0.947	0.934	0.91
Methyl HT-SELEX, 1 experiments	best	0.975	0.954	0.97	0.947	0.934	0.91
Non-Methyl HT-SELEX, 5 experiments	median	0.975	0.955	0.969	0.947	0.927	0.904
Non-Methyl HT-SELEX, 5 experiments	best	0.996	0.993	0.995	0.991	0.99	0.986

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.528	10.256	0.144	0.129

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.H12INVITRO.0.S.B.pcm
PWM	ITF2.H12INVITRO.0.S.B.pwm
PFM	ITF2.H12INVITRO.0.S.B.pfm
Alignment	ITF2.H12INVITRO.0.S.B.words.tsv
Threshold to P-value map	ITF2.H12INVITRO.0.S.B.thr
Motif in other formats
JASPAR format	ITF2.H12INVITRO.0.S.B_jaspar_format.txt
MEME format	ITF2.H12INVITRO.0.S.B_meme_format.meme
Transfac format	ITF2.H12INVITRO.0.S.B_transfac_format.txt
Homer format	ITF2.H12INVITRO.0.S.B_homer_format_0.001.txt ITF2.H12INVITRO.0.S.B_homer_format_0.0005.txt ITF2.H12INVITRO.0.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	80.75	60.75	79.75	48.75
02	23.75	143.75	57.75	44.75
03	146.0	15.0	66.0	43.0
04	23.0	19.0	142.0	86.0
05	18.0	10.0	177.0	65.0
06	18.0	88.0	1.0	163.0
07	17.0	2.0	251.0	0.0
08	0.0	270.0	0.0	0.0
09	270.0	0.0	0.0	0.0
10	0.0	114.0	156.0	0.0
11	0.0	114.0	156.0	0.0
12	0.0	0.0	0.0	270.0
13	0.0	0.0	270.0	0.0
14	0.0	86.0	11.0	173.0
15	37.0	32.0	72.0	129.0
16	60.0	62.0	60.0	88.0

PFM

	A	C	G	T
01	0.299	0.225	0.295	0.181
02	0.088	0.532	0.214	0.166
03	0.541	0.056	0.244	0.159
04	0.085	0.07	0.526	0.319
05	0.067	0.037	0.656	0.241
06	0.067	0.326	0.004	0.604
07	0.063	0.007	0.93	0.0
08	0.0	1.0	0.0	0.0
09	1.0	0.0	0.0	0.0
10	0.0	0.422	0.578	0.0
11	0.0	0.422	0.578	0.0
12	0.0	0.0	0.0	1.0
13	0.0	0.0	1.0	0.0
14	0.0	0.319	0.041	0.641
15	0.137	0.119	0.267	0.478
16	0.222	0.23	0.222	0.326

PWM

	A	C	G	T
01	0.176	-0.103	0.164	-0.318
02	-1.008	0.745	-0.153	-0.401
03	0.76	-1.435	-0.022	-0.439
04	-1.038	-1.217	0.733	0.238
05	-1.267	-1.799	0.951	-0.037
06	-1.267	0.26	-3.357	0.87
07	-1.32	-3.009	1.298	-3.896
08	-3.896	1.371	-3.896	-3.896
09	1.371	-3.896	-3.896	-3.896
10	-3.896	0.516	0.826	-3.896
11	-3.896	0.516	0.826	-3.896
12	-3.896	-3.896	-3.896	1.371
13	-3.896	-3.896	1.371	-3.896
14	-3.896	0.238	-1.715	0.929
15	-0.585	-0.724	0.063	0.638
16	-0.115	-0.083	-0.115	0.26

Standard thresholds

P-value	Threshold
0.001	2.66586
0.0005	3.96466
0.0001	6.59191