NR5A2.H12RSNP.0.PSM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR5A2.H12RSNP.0.PSM.D
Gene (human)	NR5A2 (GeneCards)
Gene synonyms (human)	B1F, CPF, FTF
Gene (mouse)	Nr5a2
Gene synonyms (mouse)	Lrh1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	11
Consensus	dbYCAAGGYCR
GC content	55.49%
Information content (bits; total / per base)	12.589 / 1.144
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1001

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 (5)	0.893	0.917	0.81	0.849	0.864	0.888	3.16	3.292	170.745	207.921
Mouse	6 (34)	0.911	0.939	0.809	0.876	0.903	0.941	3.666	4.14	130.2	433.201

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.978	0.973	0.787	0.806	0.641	0.681
Overall, 2 experiments	best	0.985	0.98	0.811	0.827	0.653	0.694
Methyl HT-SELEX, 1 experiments	median	0.972	0.966	0.763	0.786	0.63	0.668
Methyl HT-SELEX, 1 experiments	best	0.972	0.966	0.763	0.786	0.63	0.668
Non-Methyl HT-SELEX, 1 experiments	median	0.985	0.98	0.811	0.827	0.653	0.694
Non-Methyl HT-SELEX, 1 experiments	best	0.985	0.98	0.811	0.827	0.653	0.694

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	FTZF1-related (NR5A) {2.1.5} (TFClass)
TF subfamily	{2.1.5.0} (TFClass)
TFClass ID	TFClass: 2.1.5.0.2
HGNC	HGNC:7984
MGI	MGI:1346834
EntrezGene (human)	GeneID:2494 (SSTAR profile)
EntrezGene (mouse)	GeneID:26424 (SSTAR profile)
UniProt ID (human)	NR5A2_HUMAN
UniProt ID (mouse)	NR5A2_MOUSE
UniProt AC (human)	O00482 (TFClass)
UniProt AC (mouse)	P45448 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 6 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	NR5A2.H12RSNP.0.PSM.D.pcm
PWM	NR5A2.H12RSNP.0.PSM.D.pwm
PFM	NR5A2.H12RSNP.0.PSM.D.pfm
Alignment	NR5A2.H12RSNP.0.PSM.D.words.tsv
Threshold to P-value map	NR5A2.H12RSNP.0.PSM.D.thr
Motif in other formats
JASPAR format	NR5A2.H12RSNP.0.PSM.D_jaspar_format.txt
MEME format	NR5A2.H12RSNP.0.PSM.D_meme_format.meme
Transfac format	NR5A2.H12RSNP.0.PSM.D_transfac_format.txt
Homer format	NR5A2.H12RSNP.0.PSM.D_homer_format_0.001.txt NR5A2.H12RSNP.0.PSM.D_homer_format_0.0005.txt NR5A2.H12RSNP.0.PSM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	201.0	161.0	434.0	205.0
02	67.0	293.0	276.0	365.0
03	39.0	428.0	28.0	506.0
04	2.0	937.0	60.0	2.0
05	995.0	1.0	5.0	0.0
06	947.0	0.0	37.0	17.0
07	0.0	1.0	998.0	2.0
08	1.0	0.0	998.0	2.0
09	116.0	401.0	37.0	447.0
10	10.0	836.0	14.0	141.0
11	753.0	39.0	126.0	83.0

PFM

	A	C	G	T
01	0.201	0.161	0.434	0.205
02	0.067	0.293	0.276	0.365
03	0.039	0.428	0.028	0.505
04	0.002	0.936	0.06	0.002
05	0.994	0.001	0.005	0.0
06	0.946	0.0	0.037	0.017
07	0.0	0.001	0.997	0.002
08	0.001	0.0	0.997	0.002
09	0.116	0.401	0.037	0.447
10	0.01	0.835	0.014	0.141
11	0.752	0.039	0.126	0.083

PWM

	A	C	G	T
01	-0.217	-0.437	0.548	-0.198
02	-1.299	0.157	0.097	0.375
03	-1.822	0.534	-2.137	0.701
04	-4.214	1.315	-1.407	-4.214
05	1.375	-4.526	-3.623	-4.983
06	1.326	-4.983	-1.873	-2.599
07	-4.983	-4.526	1.378	-4.214
08	-4.526	-4.983	1.378	-4.214
09	-0.761	0.469	-1.873	0.577
10	-3.067	1.201	-2.774	-0.568
11	1.097	-1.822	-0.679	-1.09

Standard thresholds

P-value	Threshold
0.001	3.65826
0.0005	4.834385
0.0001	7.31238