FOXL2.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXL2.H12INVIVO.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	10
Consensus	TGTTTAYWhW
GC content	23.05%
Information content (bits; total / per base)	11.877 / 1.188
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	990

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)	0.873	0.891	0.766	0.792	0.895	0.911	3.258	3.417	243.641	304.06

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.843	0.788	0.761	0.718	0.663	0.649
Overall, 2 experiments	best	0.851	0.799	0.766	0.719	0.676	0.654
Methyl HT-SELEX, 1 experiments	median	0.835	0.777	0.766	0.717	0.676	0.654
Methyl HT-SELEX, 1 experiments	best	0.835	0.777	0.766	0.717	0.676	0.654
Non-Methyl HT-SELEX, 1 experiments	median	0.851	0.799	0.756	0.719	0.65	0.645
Non-Methyl HT-SELEX, 1 experiments	best	0.851	0.799	0.756	0.719	0.65	0.645

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.69	0.512	0.746	0.55

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.H12INVIVO.0.PSM.A.pcm
PWM	FOXL2.H12INVIVO.0.PSM.A.pwm
PFM	FOXL2.H12INVIVO.0.PSM.A.pfm
Alignment	FOXL2.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	FOXL2.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	FOXL2.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	FOXL2.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	FOXL2.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	FOXL2.H12INVIVO.0.PSM.A_homer_format_0.001.txt FOXL2.H12INVIVO.0.PSM.A_homer_format_0.0005.txt FOXL2.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	18.0	1.0	13.0	958.0
02	93.0	4.0	891.0	2.0
03	2.0	8.0	1.0	979.0
04	0.0	2.0	5.0	983.0
05	3.0	1.0	83.0	903.0
06	809.0	74.0	8.0	99.0
07	6.0	589.0	38.0	357.0
08	577.0	132.0	58.0	223.0
09	194.0	158.0	103.0	535.0
10	239.0	65.0	48.0	638.0

PFM

	A	C	G	T
01	0.018	0.001	0.013	0.968
02	0.094	0.004	0.9	0.002
03	0.002	0.008	0.001	0.989
04	0.0	0.002	0.005	0.993
05	0.003	0.001	0.084	0.912
06	0.817	0.075	0.008	0.1
07	0.006	0.595	0.038	0.361
08	0.583	0.133	0.059	0.225
09	0.196	0.16	0.104	0.54
10	0.241	0.066	0.048	0.644

PWM

	A	C	G	T
01	-2.536	-4.516	-2.829	1.348
02	-0.967	-3.774	1.276	-4.203
03	-4.203	-3.244	-4.516	1.37
04	-4.973	-4.203	-3.613	1.374
05	-3.966	-4.516	-1.079	1.289
06	1.18	-1.191	-3.244	-0.906
07	-3.474	0.863	-1.836	0.364
08	0.842	-0.623	-1.429	-0.103
09	-0.242	-0.445	-0.867	0.767
10	-0.035	-1.318	-1.612	0.943

Standard thresholds

P-value	Threshold
0.001	4.079385
0.0005	5.181355
0.0001	7.413205