SRBP2.H12CORE.0.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SRBP2.H12CORE.0.S.B
Gene (human)	SREBF2 (GeneCards)
Gene synonyms (human)	BHLHD2, SREBP2
Gene (mouse)	Srebf2
Gene synonyms (mouse)	Srebp2
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	dRWSGCGTGAKn
GC content	56.67%
Information content (bits; total / per base)	12.479 / 1.04
Data sources	HT-SELEX
Aligned words	6803

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)	0.749	0.76	0.58	0.603	0.734	0.738	2.073	2.1	47.95	57.469

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.956	0.937	0.811	0.808	0.689	0.701
Overall, 4 experiments	best	0.961	0.947	0.926	0.898	0.828	0.809
Methyl HT-SELEX, 1 experiments	median	0.961	0.938	0.926	0.898	0.828	0.809
Methyl HT-SELEX, 1 experiments	best	0.961	0.938	0.926	0.898	0.828	0.809
Non-Methyl HT-SELEX, 3 experiments	median	0.951	0.936	0.781	0.79	0.644	0.675
Non-Methyl HT-SELEX, 3 experiments	best	0.96	0.947	0.842	0.826	0.733	0.727

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.273	1.002	-0.006	0.008

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.H12CORE.0.S.B.pcm
PWM	SRBP2.H12CORE.0.S.B.pwm
PFM	SRBP2.H12CORE.0.S.B.pfm
Alignment	SRBP2.H12CORE.0.S.B.words.tsv
Threshold to P-value map	SRBP2.H12CORE.0.S.B.thr
Motif in other formats
JASPAR format	SRBP2.H12CORE.0.S.B_jaspar_format.txt
MEME format	SRBP2.H12CORE.0.S.B_meme_format.meme
Transfac format	SRBP2.H12CORE.0.S.B_transfac_format.txt
Homer format	SRBP2.H12CORE.0.S.B_homer_format_0.001.txt SRBP2.H12CORE.0.S.B_homer_format_0.0005.txt SRBP2.H12CORE.0.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1362.5	1160.5	2781.5	1498.5
02	2952.25	443.25	3099.25	308.25
03	778.0	204.0	610.0	5211.0
04	430.0	3043.0	3133.0	197.0
05	2184.0	20.0	4545.0	54.0
06	8.0	6233.0	419.0	143.0
07	5.0	5.0	6793.0	0.0
08	10.0	79.0	0.0	6714.0
09	13.0	4.0	6772.0	14.0
10	6147.0	32.0	492.0	132.0
11	182.0	1075.0	1187.0	4359.0
12	1327.25	1563.25	2573.25	1339.25

PFM

	A	C	G	T
01	0.2	0.171	0.409	0.22
02	0.434	0.065	0.456	0.045
03	0.114	0.03	0.09	0.766
04	0.063	0.447	0.461	0.029
05	0.321	0.003	0.668	0.008
06	0.001	0.916	0.062	0.021
07	0.001	0.001	0.999	0.0
08	0.001	0.012	0.0	0.987
09	0.002	0.001	0.995	0.002
10	0.904	0.005	0.072	0.019
11	0.027	0.158	0.174	0.641
12	0.195	0.23	0.378	0.197

PWM

	A	C	G	T
01	-0.221	-0.382	0.491	-0.126
02	0.551	-1.341	0.6	-1.702
03	-0.781	-2.111	-1.023	1.119
04	-1.371	0.581	0.61	-2.146
05	0.25	-4.34	0.982	-3.411
06	-5.117	1.298	-1.397	-2.462
07	-5.465	-5.465	1.384	-6.649
08	-4.938	-3.043	-6.649	1.372
09	-4.718	-5.615	1.381	-4.655
10	1.284	-3.908	-1.237	-2.541
11	-2.224	-0.458	-0.359	0.94
12	-0.248	-0.084	0.414	-0.239

Standard thresholds

P-value	Threshold
0.001	3.629815
0.0005	4.84743
0.0001	7.271505