SRBP2.H12RSNP.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SRBP2.H12RSNP.1.P.B
Gene (human)	SREBF2 (GeneCards)
Gene synonyms (human)	BHLHD2, SREBP2
Gene (mouse)	Srebf2
Gene synonyms (mouse)	Srebp2
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	11
Consensus	vvTKGSShGRb
GC content	61.85%
Information content (bits; total / per base)	6.792 / 0.617
Data sources	ChIP-Seq
Aligned words	1000

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	2 (14)	0.744	0.755	0.562	0.577	0.728	0.736	1.939	2.004	35.235	42.42

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.747	0.687	0.662	0.629	0.598	0.586
Overall, 4 experiments	best	0.858	0.796	0.797	0.743	0.719	0.683
Methyl HT-SELEX, 1 experiments	median	0.858	0.796	0.797	0.743	0.719	0.683
Methyl HT-SELEX, 1 experiments	best	0.858	0.796	0.797	0.743	0.719	0.683
Non-Methyl HT-SELEX, 3 experiments	median	0.719	0.648	0.658	0.613	0.596	0.578
Non-Methyl HT-SELEX, 3 experiments	best	0.774	0.725	0.666	0.644	0.599	0.594

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.541	2.502	0.033	0.024

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	bHLH-ZIP {1.2.6} (TFClass)
TF subfamily	SREBF {1.2.6.3} (TFClass)
TFClass ID	TFClass: 1.2.6.3.2
HGNC	HGNC:11290
MGI	MGI:107585
EntrezGene (human)	GeneID:6721 (SSTAR profile)
EntrezGene (mouse)	GeneID:20788 (SSTAR profile)
UniProt ID (human)	SRBP2_HUMAN
UniProt ID (mouse)	SRBP2_MOUSE
UniProt AC (human)	Q12772 (TFClass)
UniProt AC (mouse)	Q3U1N2 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	SRBP2.H12RSNP.1.P.B.pcm
PWM	SRBP2.H12RSNP.1.P.B.pwm
PFM	SRBP2.H12RSNP.1.P.B.pfm
Alignment	SRBP2.H12RSNP.1.P.B.words.tsv
Threshold to P-value map	SRBP2.H12RSNP.1.P.B.thr
Motif in other formats
JASPAR format	SRBP2.H12RSNP.1.P.B_jaspar_format.txt
MEME format	SRBP2.H12RSNP.1.P.B_meme_format.meme
Transfac format	SRBP2.H12RSNP.1.P.B_transfac_format.txt
Homer format	SRBP2.H12RSNP.1.P.B_homer_format_0.001.txt SRBP2.H12RSNP.1.P.B_homer_format_0.0005.txt SRBP2.H12RSNP.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	254.0	182.0	481.0	83.0
02	394.0	177.0	401.0	28.0
03	80.0	25.0	29.0	866.0
04	27.0	39.0	732.0	202.0
05	221.0	9.0	744.0	26.0
06	33.0	252.0	627.0	88.0
07	125.0	422.0	426.0	27.0
08	285.0	245.0	42.0	428.0
09	75.0	72.0	827.0	26.0
10	518.0	66.0	349.0	67.0
11	126.0	168.0	489.0	217.0

PFM

	A	C	G	T
01	0.254	0.182	0.481	0.083
02	0.394	0.177	0.401	0.028
03	0.08	0.025	0.029	0.866
04	0.027	0.039	0.732	0.202
05	0.221	0.009	0.744	0.026
06	0.033	0.252	0.627	0.088
07	0.125	0.422	0.426	0.027
08	0.285	0.245	0.042	0.428
09	0.075	0.072	0.827	0.026
10	0.518	0.066	0.349	0.067
11	0.126	0.168	0.489	0.217

PWM

	A	C	G	T
01	0.016	-0.315	0.651	-1.089
02	0.452	-0.342	0.47	-2.136
03	-1.125	-2.243	-2.103	1.238
04	-2.171	-1.821	1.07	-0.212
05	-0.122	-3.156	1.086	-2.206
06	-1.981	0.008	0.915	-1.032
07	-0.686	0.521	0.53	-2.171
08	0.13	-0.02	-1.75	0.535
09	-1.188	-1.228	1.192	-2.206
10	0.725	-1.313	0.332	-1.298
11	-0.678	-0.394	0.668	-0.141

Standard thresholds

P-value	Threshold
0.001	5.03003
0.0005	5.643375
0.0001	6.833345