FOXA3.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXA3.H12INVIVO.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	14
Consensus	bbhTGTTTACWYWR
GC content	35.13%
Information content (bits; total / per base)	13.974 / 0.998
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1003

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)	0.921	0.943	0.849	0.876	0.926	0.947	3.753	3.935	323.824	399.137
Mouse	2 (14)	0.884	0.968	0.851	0.931	0.9	0.974	4.201	4.845	382.103	715.42

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.843	0.841	0.763	0.768	0.642	0.668
Overall, 2 experiments	best	0.995	0.993	0.941	0.937	0.743	0.78
Methyl HT-SELEX, 1 experiments	median	0.69	0.688	0.586	0.599	0.542	0.557
Methyl HT-SELEX, 1 experiments	best	0.69	0.688	0.586	0.599	0.542	0.557
Non-Methyl HT-SELEX, 1 experiments	median	0.995	0.993	0.941	0.937	0.743	0.78
Non-Methyl HT-SELEX, 1 experiments	best	0.995	0.993	0.941	0.937	0.743	0.78

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	17.944	3.499	0.362	0.259

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.H12INVIVO.0.PS.A.pcm
PWM	FOXA3.H12INVIVO.0.PS.A.pwm
PFM	FOXA3.H12INVIVO.0.PS.A.pfm
Alignment	FOXA3.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	FOXA3.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	FOXA3.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	FOXA3.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	FOXA3.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	FOXA3.H12INVIVO.0.PS.A_homer_format_0.001.txt FOXA3.H12INVIVO.0.PS.A_homer_format_0.0005.txt FOXA3.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	112.0	478.0	194.0	219.0
02	121.0	448.0	230.0	204.0
03	211.0	178.0	145.0	469.0
04	1.0	1.0	0.0	1001.0
05	262.0	0.0	741.0	0.0
06	1.0	0.0	1.0	1001.0
07	2.0	0.0	32.0	969.0
08	0.0	0.0	250.0	753.0
09	924.0	0.0	77.0	2.0
10	5.0	896.0	1.0	101.0
11	379.0	141.0	4.0	479.0
12	44.0	297.0	79.0	583.0
13	507.0	7.0	28.0	461.0
14	168.0	93.0	612.0	130.0

PFM

	A	C	G	T
01	0.112	0.477	0.193	0.218
02	0.121	0.447	0.229	0.203
03	0.21	0.177	0.145	0.468
04	0.001	0.001	0.0	0.998
05	0.261	0.0	0.739	0.0
06	0.001	0.0	0.001	0.998
07	0.002	0.0	0.032	0.966
08	0.0	0.0	0.249	0.751
09	0.921	0.0	0.077	0.002
10	0.005	0.893	0.001	0.101
11	0.378	0.141	0.004	0.478
12	0.044	0.296	0.079	0.581
13	0.505	0.007	0.028	0.46
14	0.167	0.093	0.61	0.13

PWM

	A	C	G	T
01	-0.798	0.642	-0.255	-0.134
02	-0.721	0.577	-0.086	-0.205
03	-0.171	-0.34	-0.543	0.623
04	-4.528	-4.528	-4.985	1.379
05	0.044	-4.985	1.079	-4.985
06	-4.528	-4.985	-4.528	1.379
07	-4.216	-4.985	-2.013	1.347
08	-4.985	-4.985	-0.003	1.095
09	1.299	-4.985	-1.165	-4.216
10	-3.625	1.269	-4.528	-0.899
11	0.411	-0.57	-3.786	0.644
12	-1.709	0.168	-1.14	0.84
13	0.701	-3.365	-2.139	0.606
14	-0.397	-0.98	0.888	-0.651

Standard thresholds

P-value	Threshold
0.001	2.84036
0.0005	4.14781
0.0001	6.95696