SRBP2.H12INVIVO.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SRBP2.H12INVIVO.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	13
Consensus	vvvWGGvSWGRnb
GC content	63.3%
Information content (bits; total / per base)	8.25 / 0.635
Data sources	ChIP-Seq
Aligned words	2342

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)	0.745	0.749	0.563	0.578	0.743	0.75	2.175	2.213	33.545	38.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.797	0.758	0.676	0.661	0.599	0.601
Overall, 4 experiments	best	0.914	0.873	0.828	0.792	0.722	0.707
Methyl HT-SELEX, 1 experiments	median	0.914	0.873	0.828	0.792	0.722	0.707
Methyl HT-SELEX, 1 experiments	best	0.914	0.873	0.828	0.792	0.722	0.707
Non-Methyl HT-SELEX, 3 experiments	median	0.784	0.728	0.667	0.655	0.59	0.601
Non-Methyl HT-SELEX, 3 experiments	best	0.81	0.787	0.686	0.667	0.607	0.602

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.536	2.482	0.044	0.033

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.H12INVIVO.1.P.B.pcm
PWM	SRBP2.H12INVIVO.1.P.B.pwm
PFM	SRBP2.H12INVIVO.1.P.B.pfm
Alignment	SRBP2.H12INVIVO.1.P.B.words.tsv
Threshold to P-value map	SRBP2.H12INVIVO.1.P.B.thr
Motif in other formats
JASPAR format	SRBP2.H12INVIVO.1.P.B_jaspar_format.txt
MEME format	SRBP2.H12INVIVO.1.P.B_meme_format.meme
Transfac format	SRBP2.H12INVIVO.1.P.B_transfac_format.txt
Homer format	SRBP2.H12INVIVO.1.P.B_homer_format_0.001.txt SRBP2.H12INVIVO.1.P.B_homer_format_0.0005.txt SRBP2.H12INVIVO.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	609.707	577.904	878.334	276.055
02	405.721	707.176	964.952	264.152
03	494.205	386.733	1331.932	129.129
04	350.404	113.691	143.532	1734.374
05	50.244	77.738	2128.859	85.159
06	121.656	13.366	2201.523	5.456
07	411.337	516.625	1149.069	264.969
08	260.005	537.9	1514.69	29.404
09	677.944	351.217	25.805	1287.034
10	58.592	183.52	2042.551	57.336
11	1637.543	46.971	526.174	131.312
12	368.512	440.031	865.337	668.12
13	371.105	490.793	1055.59	424.512

PFM

	A	C	G	T
01	0.26	0.247	0.375	0.118
02	0.173	0.302	0.412	0.113
03	0.211	0.165	0.569	0.055
04	0.15	0.049	0.061	0.741
05	0.021	0.033	0.909	0.036
06	0.052	0.006	0.94	0.002
07	0.176	0.221	0.491	0.113
08	0.111	0.23	0.647	0.013
09	0.289	0.15	0.011	0.55
10	0.025	0.078	0.872	0.024
11	0.699	0.02	0.225	0.056
12	0.157	0.188	0.369	0.285
13	0.158	0.21	0.451	0.181

PWM

	A	C	G	T
01	0.04	-0.013	0.404	-0.748
02	-0.365	0.188	0.498	-0.792
03	-0.169	-0.413	0.82	-1.5
04	-0.511	-1.625	-1.396	1.084
05	-2.421	-1.998	1.288	-1.909
06	-1.559	-3.648	1.322	-4.375
07	-0.352	-0.125	0.673	-0.789
08	-0.808	-0.085	0.948	-2.931
09	0.146	-0.509	-3.053	0.786
10	-2.273	-1.153	1.247	-2.294
11	1.026	-2.486	-0.106	-1.484
12	-0.461	-0.285	0.39	0.132
13	-0.454	-0.176	0.588	-0.32

Standard thresholds

P-value	Threshold
0.001	4.99531
0.0005	5.71056
0.0001	7.142475