FOXL2.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXL2.H12INVITRO.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	ndTGTTKnbn
GC content	41.7%
Information content (bits; total / per base)	7.709 / 0.771
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9241

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)	0.761	0.788	0.553	0.591	0.746	0.758	1.853	1.917	105.419	130.032

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.846	0.789	0.797	0.739	0.743	0.694
Overall, 2 experiments	best	0.852	0.797	0.799	0.741	0.752	0.698
Methyl HT-SELEX, 1 experiments	median	0.839	0.782	0.799	0.738	0.752	0.698
Methyl HT-SELEX, 1 experiments	best	0.839	0.782	0.799	0.738	0.752	0.698
Non-Methyl HT-SELEX, 1 experiments	median	0.852	0.797	0.795	0.741	0.733	0.69
Non-Methyl HT-SELEX, 1 experiments	best	0.852	0.797	0.795	0.741	0.733	0.69

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.666	0.421	0.613	0.435

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.H12INVITRO.0.PSM.A.pcm
PWM	FOXL2.H12INVITRO.0.PSM.A.pwm
PFM	FOXL2.H12INVITRO.0.PSM.A.pfm
Alignment	FOXL2.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	FOXL2.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	FOXL2.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	FOXL2.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	FOXL2.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	FOXL2.H12INVITRO.0.PSM.A_homer_format_0.001.txt FOXL2.H12INVITRO.0.PSM.A_homer_format_0.0005.txt FOXL2.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2161.5	2389.5	2815.5	1874.5
02	1936.5	571.5	3192.5	3540.5
03	3.0	929.0	103.0	8206.0
04	0.0	72.0	9169.0	0.0
05	0.0	299.0	0.0	8942.0
06	0.0	0.0	928.0	8313.0
07	1410.0	512.0	1904.0	5415.0
08	3430.0	1513.0	2238.0	2060.0
09	417.25	3621.25	2795.25	2407.25
10	1537.5	2483.5	2998.5	2221.5

PFM

	A	C	G	T
01	0.234	0.259	0.305	0.203
02	0.21	0.062	0.345	0.383
03	0.0	0.101	0.011	0.888
04	0.0	0.008	0.992	0.0
05	0.0	0.032	0.0	0.968
06	0.0	0.0	0.1	0.9
07	0.153	0.055	0.206	0.586
08	0.371	0.164	0.242	0.223
09	0.045	0.392	0.302	0.26
10	0.166	0.269	0.324	0.24

PWM

	A	C	G	T
01	-0.066	0.034	0.198	-0.209
02	-0.176	-1.394	0.323	0.427
03	-6.082	-0.91	-3.089	1.267
04	-6.921	-3.438	1.378	-6.921
05	-6.921	-2.038	-6.921	1.353
06	-6.921	-6.921	-0.911	1.28
07	-0.493	-1.503	-0.193	0.851
08	0.395	-0.423	-0.032	-0.115
09	-1.707	0.449	0.19	0.041
10	-0.407	0.072	0.261	-0.039

Standard thresholds

P-value	Threshold
0.001	5.43466
0.0005	6.068905
0.0001	6.938225