FOXA3.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXA3.H12INVITRO.0.PS.A
Gene (human)	FOXA3 (GeneCards)
Gene synonyms (human)	HNF3G, TCF3G
Gene (mouse)	Foxa3
Gene synonyms (mouse)	Hnf3g, Tcf-3g, Tcf3g
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	TGTTTACWbWdn
GC content	32.5%
Information content (bits; total / per base)	12.31 / 1.026
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	1 (7)	0.925	0.948	0.855	0.888	0.933	0.952	3.858	4.031	353.553	410.854
Mouse	2 (14)	0.875	0.959	0.833	0.918	0.893	0.965	3.85	4.464	350.414	648.602

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.848	0.85	0.77	0.776	0.646	0.673
Overall, 2 experiments	best	0.997	0.996	0.946	0.945	0.747	0.785
Methyl HT-SELEX, 1 experiments	median	0.698	0.703	0.593	0.607	0.546	0.562
Methyl HT-SELEX, 1 experiments	best	0.698	0.703	0.593	0.607	0.546	0.562
Non-Methyl HT-SELEX, 1 experiments	median	0.997	0.996	0.946	0.945	0.747	0.785
Non-Methyl HT-SELEX, 1 experiments	best	0.997	0.996	0.946	0.945	0.747	0.785

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	8.824	2.872	0.349	0.264

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Fork head/winged helix factors {3.3} (TFClass)
TF family	FOX {3.3.1} (TFClass)
TF subfamily	FOXA {3.3.1.1} (TFClass)
TFClass ID	TFClass: 3.3.1.1.3
HGNC	HGNC:5023
MGI	MGI:1347477
EntrezGene (human)	GeneID:3171 (SSTAR profile)
EntrezGene (mouse)	GeneID:15377 (SSTAR profile)
UniProt ID (human)	FOXA3_HUMAN
UniProt ID (mouse)	FOXA3_MOUSE
UniProt AC (human)	P55318 (TFClass)
UniProt AC (mouse)	P35584 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 2 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	FOXA3.H12INVITRO.0.PS.A.pcm
PWM	FOXA3.H12INVITRO.0.PS.A.pwm
PFM	FOXA3.H12INVITRO.0.PS.A.pfm
Alignment	FOXA3.H12INVITRO.0.PS.A.words.tsv
Threshold to P-value map	FOXA3.H12INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	FOXA3.H12INVITRO.0.PS.A_jaspar_format.txt
MEME format	FOXA3.H12INVITRO.0.PS.A_meme_format.meme
Transfac format	FOXA3.H12INVITRO.0.PS.A_transfac_format.txt
Homer format	FOXA3.H12INVITRO.0.PS.A_homer_format_0.001.txt FOXA3.H12INVITRO.0.PS.A_homer_format_0.0005.txt FOXA3.H12INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2.0	2.0	2.0	994.0
02	273.0	0.0	727.0	0.0
03	4.0	3.0	2.0	991.0
04	5.0	2.0	47.0	946.0
05	1.0	1.0	198.0	800.0
06	849.0	0.0	142.0	9.0
07	6.0	925.0	6.0	63.0
08	437.0	160.0	4.0	399.0
09	102.0	301.0	118.0	479.0
10	487.0	31.0	62.0	420.0
11	247.0	140.0	404.0	209.0
12	148.0	324.0	299.0	229.0

PFM

	A	C	G	T
01	0.002	0.002	0.002	0.994
02	0.273	0.0	0.727	0.0
03	0.004	0.003	0.002	0.991
04	0.005	0.002	0.047	0.946
05	0.001	0.001	0.198	0.8
06	0.849	0.0	0.142	0.009
07	0.006	0.925	0.006	0.063
08	0.437	0.16	0.004	0.399
09	0.102	0.301	0.118	0.479
10	0.487	0.031	0.062	0.42
11	0.247	0.14	0.404	0.209
12	0.148	0.324	0.299	0.229

PWM

	A	C	G	T
01	-4.213	-4.213	-4.213	1.375
02	0.087	-4.982	1.063	-4.982
03	-3.783	-3.975	-4.213	1.372
04	-3.622	-4.213	-1.642	1.326
05	-4.525	-4.525	-0.231	1.158
06	1.218	-4.982	-0.56	-3.156
07	-3.484	1.303	-3.484	-1.358
08	0.556	-0.442	-3.783	0.465
09	-0.887	0.184	-0.743	0.647
10	0.663	-2.04	-1.374	0.516
11	-0.012	-0.574	0.477	-0.178
12	-0.52	0.258	0.178	-0.087

Standard thresholds

P-value	Threshold
0.001	3.75166
0.0005	4.89391
0.0001	7.43616