SRBP2.H13RSNP.2.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SRBP2.H13RSNP.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	16
Consensus	nddATCAGGTGATnhn
GC content	43.77%
Information content (bits; total / per base)	18.887 / 1.18
Data sources	Methyl-HT-SELEX
Aligned words	401
Previous names	SRBP2.H12RSNP.2.M.C

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)	0.526	0.534	0.372	0.382	0.59	0.61	1.474	1.57	7.571	13.377

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.851	0.824	0.731	0.714	0.634	0.637
Overall, 4 experiments	best	0.967	0.961	0.887	0.869	0.78	0.769
Methyl HT-SELEX, 1 experiments	median	0.967	0.961	0.887	0.869	0.78	0.769
Methyl HT-SELEX, 1 experiments	best	0.967	0.961	0.887	0.869	0.78	0.769
Non-Methyl HT-SELEX, 3 experiments	median	0.819	0.788	0.731	0.701	0.619	0.637
Non-Methyl HT-SELEX, 3 experiments	best	0.884	0.86	0.732	0.728	0.65	0.638

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.079	0.185	0.001	0.015

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.2.M.C.pcm
PWM	SRBP2.H13RSNP.2.M.C.pwm
PFM	SRBP2.H13RSNP.2.M.C.pfm
Threshold to P-value map	SRBP2.H13RSNP.2.M.C.thr
Motif in other formats
JASPAR format	SRBP2.H13RSNP.2.M.C_jaspar_format.txt
MEME format	SRBP2.H13RSNP.2.M.C_meme_format.meme
Transfac format	SRBP2.H13RSNP.2.M.C_transfac_format.txt
Homer format	SRBP2.H13RSNP.2.M.C_homer_format_0.001.txt SRBP2.H13RSNP.2.M.C_homer_format_0.0005.txt SRBP2.H13RSNP.2.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	119.0	80.0	130.0	72.0
02	112.5	46.5	85.5	156.5
03	97.0	38.0	159.0	107.0
04	341.0	2.0	58.0	0.0
05	1.0	0.0	0.0	400.0
06	2.0	397.0	2.0	0.0
07	401.0	0.0	0.0	0.0
08	0.0	10.0	391.0	0.0
09	0.0	0.0	401.0	0.0
10	0.0	0.0	0.0	401.0
11	0.0	0.0	401.0	0.0
12	401.0	0.0	0.0	0.0
13	0.0	38.0	15.0	348.0
14	87.0	148.0	70.0	96.0
15	139.5	70.5	58.5	132.5
16	71.25	102.25	105.25	122.25

PFM

	A	C	G	T
01	0.297	0.2	0.324	0.18
02	0.281	0.116	0.213	0.39
03	0.242	0.095	0.397	0.267
04	0.85	0.005	0.145	0.0
05	0.002	0.0	0.0	0.998
06	0.005	0.99	0.005	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.025	0.975	0.0
09	0.0	0.0	1.0	0.0
10	0.0	0.0	0.0	1.0
11	0.0	0.0	1.0	0.0
12	1.0	0.0	0.0	0.0
13	0.0	0.095	0.037	0.868
14	0.217	0.369	0.175	0.239
15	0.348	0.176	0.146	0.33
16	0.178	0.255	0.262	0.305

PWM

	A	C	G	T
01	0.169	-0.222	0.256	-0.325
02	0.114	-0.751	-0.157	0.44
03	-0.032	-0.946	0.456	0.064
04	1.214	-3.37	-0.537	-4.218
05	-3.707	-4.218	-4.218	1.373
06	-3.37	1.365	-3.37	-4.218
07	1.375	-4.218	-4.218	-4.218
08	-4.218	-2.18	1.35	-4.218
09	-4.218	-4.218	1.375	-4.218
10	-4.218	-4.218	-4.218	1.375
11	-4.218	-4.218	1.375	-4.218
12	1.375	-4.218	-4.218	-4.218
13	-4.218	-0.946	-1.819	1.234
14	-0.14	0.385	-0.353	-0.043
15	0.326	-0.346	-0.528	0.275
16	-0.335	0.019	0.048	0.196

Standard thresholds

P-value	Threshold
0.001	-0.28314
0.0005	1.34436
0.0001	4.57191