SRBP2.H12INVIVO.2.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SRBP2.H12INVIVO.2.M.C
Gene (human)	SREBF2 (GeneCards)
Gene synonyms (human)	BHLHD2, SREBP2
Gene (mouse)	Srebf2
Gene synonyms (mouse)	Srebp2
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	C

Motif length	12
Consensus	nRTSRSGTGAYn
GC content	49.72%
Information content (bits; total / per base)	11.465 / 0.955
Data sources	Methyl-HT-SELEX
Aligned words	9829

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)	0.724	0.739	0.538	0.556	0.703	0.719	1.973	2.023	39.25	52.222

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.944	0.922	0.801	0.793	0.675	0.688
Overall, 4 experiments	best	0.99	0.985	0.959	0.948	0.863	0.854
Methyl HT-SELEX, 1 experiments	median	0.99	0.985	0.959	0.948	0.863	0.854
Methyl HT-SELEX, 1 experiments	best	0.99	0.985	0.959	0.948	0.863	0.854
Non-Methyl HT-SELEX, 3 experiments	median	0.933	0.907	0.779	0.786	0.638	0.67
Non-Methyl HT-SELEX, 3 experiments	best	0.955	0.937	0.822	0.8	0.712	0.706

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.066	0.175	-0.013	-0.011

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.2.M.C.pcm
PWM	SRBP2.H12INVIVO.2.M.C.pwm
PFM	SRBP2.H12INVIVO.2.M.C.pfm
Alignment	SRBP2.H12INVIVO.2.M.C.words.tsv
Threshold to P-value map	SRBP2.H12INVIVO.2.M.C.thr
Motif in other formats
JASPAR format	SRBP2.H12INVIVO.2.M.C_jaspar_format.txt
MEME format	SRBP2.H12INVIVO.2.M.C_meme_format.meme
Transfac format	SRBP2.H12INVIVO.2.M.C_transfac_format.txt
Homer format	SRBP2.H12INVIVO.2.M.C_homer_format_0.001.txt SRBP2.H12INVIVO.2.M.C_homer_format_0.0005.txt SRBP2.H12INVIVO.2.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2181.25	1688.25	3510.25	2449.25
02	5461.25	549.25	3475.25	343.25
03	549.0	396.0	429.0	8455.0
04	674.0	4804.0	4163.0	188.0
05	5214.0	54.0	4109.0	452.0
06	26.0	2248.0	5598.0	1957.0
07	230.0	476.0	9117.0	6.0
08	72.0	51.0	7.0	9699.0
09	57.0	112.0	9592.0	68.0
10	9015.0	70.0	561.0	183.0
11	85.5	1499.5	668.5	7575.5
12	2071.75	3021.75	2445.75	2289.75

PFM

	A	C	G	T
01	0.222	0.172	0.357	0.249
02	0.556	0.056	0.354	0.035
03	0.056	0.04	0.044	0.86
04	0.069	0.489	0.424	0.019
05	0.53	0.005	0.418	0.046
06	0.003	0.229	0.57	0.199
07	0.023	0.048	0.928	0.001
08	0.007	0.005	0.001	0.987
09	0.006	0.011	0.976	0.007
10	0.917	0.007	0.057	0.019
11	0.009	0.153	0.068	0.771
12	0.211	0.307	0.249	0.233

PWM

	A	C	G	T
01	-0.119	-0.375	0.356	-0.003
02	0.798	-1.495	0.346	-1.963
03	-1.495	-1.821	-1.741	1.235
04	-1.291	0.67	0.527	-2.559
05	0.752	-3.777	0.514	-1.689
06	-4.465	-0.089	0.823	-0.227
07	-2.36	-1.637	1.31	-5.692
08	-3.5	-3.832	-5.578	1.372
09	-3.725	-3.069	1.361	-3.555
10	1.299	-3.527	-1.474	-2.586
11	-3.333	-0.493	-1.299	1.125
12	-0.17	0.207	-0.005	-0.071

Standard thresholds

P-value	Threshold
0.001	4.25396
0.0005	5.223465
0.0001	7.32526