SRBP2.H13RSNP.0.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SRBP2.H13RSNP.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	dvKvRCGTGAbn
GC content	57.51%
Information content (bits; total / per base)	10.212 / 0.851
Data sources	HT-SELEX
Aligned words	9805
Previous names	SRBP2.H12RSNP.0.S.B

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)	0.751	0.764	0.584	0.609	0.731	0.736	2.05	2.076	39.607	49.161

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.95	0.931	0.808	0.802	0.687	0.698
Overall, 4 experiments	best	0.956	0.942	0.915	0.885	0.817	0.797
Methyl HT-SELEX, 1 experiments	median	0.956	0.933	0.915	0.885	0.817	0.797
Methyl HT-SELEX, 1 experiments	best	0.956	0.933	0.915	0.885	0.817	0.797
Non-Methyl HT-SELEX, 3 experiments	median	0.945	0.928	0.779	0.787	0.646	0.674
Non-Methyl HT-SELEX, 3 experiments	best	0.955	0.942	0.836	0.818	0.729	0.722

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.485	2.187	-0.004	0.02

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	SRBP2.H13RSNP.0.S.B.pcm
PWM	SRBP2.H13RSNP.0.S.B.pwm
PFM	SRBP2.H13RSNP.0.S.B.pfm
Threshold to P-value map	SRBP2.H13RSNP.0.S.B.thr
Motif in other formats
JASPAR format	SRBP2.H13RSNP.0.S.B_jaspar_format.txt
MEME format	SRBP2.H13RSNP.0.S.B_meme_format.meme
Transfac format	SRBP2.H13RSNP.0.S.B_transfac_format.txt
Homer format	SRBP2.H13RSNP.0.S.B_homer_format_0.001.txt SRBP2.H13RSNP.0.S.B_homer_format_0.0005.txt SRBP2.H13RSNP.0.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2043.75	1697.75	3928.75	2134.75
02	3737.25	874.25	4350.25	843.25
03	1523.0	430.0	1620.0	6232.0
04	1112.0	3979.0	4165.0	549.0
05	3288.0	72.0	6186.0	259.0
06	49.0	8096.0	1327.0	333.0
07	34.0	7.0	9756.0	8.0
08	73.0	424.0	0.0	9308.0
09	190.0	7.0	9435.0	173.0
10	7721.0	146.0	1526.0	412.0
11	518.5	1618.5	2096.5	5571.5
12	2043.0	2136.0	3787.0	1839.0

PFM

	A	C	G	T
01	0.208	0.173	0.401	0.218
02	0.381	0.089	0.444	0.086
03	0.155	0.044	0.165	0.636
04	0.113	0.406	0.425	0.056
05	0.335	0.007	0.631	0.026
06	0.005	0.826	0.135	0.034
07	0.003	0.001	0.995	0.001
08	0.007	0.043	0.0	0.949
09	0.019	0.001	0.962	0.018
10	0.787	0.015	0.156	0.042
11	0.053	0.165	0.214	0.568
12	0.208	0.218	0.386	0.188

PWM

	A	C	G	T
01	-0.182	-0.367	0.471	-0.138
02	0.421	-1.029	0.573	-1.065
03	-0.475	-1.736	-0.414	0.933
04	-0.789	0.484	0.53	-1.493
05	0.293	-3.497	0.925	-2.24
06	-3.868	1.194	-0.613	-1.99
07	-4.214	-5.576	1.381	-5.473
08	-3.484	-1.75	-6.973	1.334
09	-2.546	-5.576	1.347	-2.639
10	1.147	-2.806	-0.473	-1.779
11	-1.55	-0.415	-0.156	0.821
12	-0.182	-0.138	0.435	-0.287

Standard thresholds

P-value	Threshold
0.001	4.729615
0.0005	5.650325
0.0001	7.420885