FOXL2.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXL2.H12RSNP.0.PSM.A
Gene (human)	FOXL2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Foxl2
Gene synonyms (mouse)	Pfrk
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	TGTTTWYWYWh
GC content	21.88%
Information content (bits; total / per base)	12.358 / 1.123
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	998

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
Mouse	2 (14)	0.847	0.876	0.715	0.758	0.887	0.919	3.304	3.574	214.846	254.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.83	0.769	0.755	0.707	0.657	0.642
Overall, 2 experiments	best	0.839	0.781	0.759	0.71	0.669	0.645
Methyl HT-SELEX, 1 experiments	median	0.822	0.757	0.759	0.705	0.669	0.645
Methyl HT-SELEX, 1 experiments	best	0.822	0.757	0.759	0.705	0.669	0.645
Non-Methyl HT-SELEX, 1 experiments	median	0.839	0.781	0.751	0.71	0.644	0.638
Non-Methyl HT-SELEX, 1 experiments	best	0.839	0.781	0.751	0.71	0.644	0.638

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.721	0.544	0.766	0.573

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	FOXL {3.3.1.12} (TFClass)
TFClass ID	TFClass: 3.3.1.12.2
HGNC	HGNC:1092
MGI	MGI:1349428
EntrezGene (human)	GeneID:668 (SSTAR profile)
EntrezGene (mouse)	GeneID:26927 (SSTAR profile)
UniProt ID (human)	FOXL2_HUMAN
UniProt ID (mouse)	FOXL2_MOUSE
UniProt AC (human)	P58012 (TFClass)
UniProt AC (mouse)	O88470 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	FOXL2.H12RSNP.0.PSM.A.pcm
PWM	FOXL2.H12RSNP.0.PSM.A.pwm
PFM	FOXL2.H12RSNP.0.PSM.A.pfm
Alignment	FOXL2.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	FOXL2.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	FOXL2.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	FOXL2.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	FOXL2.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	FOXL2.H12RSNP.0.PSM.A_homer_format_0.001.txt FOXL2.H12RSNP.0.PSM.A_homer_format_0.0005.txt FOXL2.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	21.0	2.0	21.0	954.0
02	132.0	0.0	866.0	0.0
03	3.0	4.0	1.0	990.0
04	0.0	4.0	2.0	992.0
05	2.0	0.0	62.0	934.0
06	717.0	17.0	27.0	237.0
07	5.0	558.0	81.0	354.0
08	634.0	91.0	79.0	194.0
09	122.0	148.0	87.0	641.0
10	220.0	31.0	21.0	726.0
11	259.0	220.0	80.0	439.0

PFM

	A	C	G	T
01	0.021	0.002	0.021	0.956
02	0.132	0.0	0.868	0.0
03	0.003	0.004	0.001	0.992
04	0.0	0.004	0.002	0.994
05	0.002	0.0	0.062	0.936
06	0.718	0.017	0.027	0.237
07	0.005	0.559	0.081	0.355
08	0.635	0.091	0.079	0.194
09	0.122	0.148	0.087	0.642
10	0.22	0.031	0.021	0.727
11	0.26	0.22	0.08	0.44

PWM

	A	C	G	T
01	-2.403	-4.211	-2.403	1.336
02	-0.631	-4.98	1.24	-4.98
03	-3.973	-3.781	-4.523	1.373
04	-4.98	-3.781	-4.211	1.375
05	-4.211	-4.98	-1.372	1.315
06	1.051	-2.596	-2.169	-0.051
07	-3.62	0.801	-1.111	0.348
08	0.928	-0.997	-1.135	-0.25
09	-0.708	-0.518	-1.041	0.939
10	-0.125	-2.038	-2.403	1.064
11	0.037	-0.125	-1.123	0.562

Standard thresholds

P-value	Threshold
0.001	3.88601
0.0005	5.01961
0.0001	7.284545