SRBP2.H12INVITRO.0.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SRBP2.H12INVITRO.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	13
Consensus	dnRTSACGTGATn
GC content	50.96%
Information content (bits; total / per base)	16.463 / 1.266
Data sources	HT-SELEX
Aligned words	806

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)	0.696	0.707	0.544	0.567	0.702	0.707	1.946	1.973	31.634	38.194

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.959	0.945	0.814	0.812	0.685	0.701
Overall, 4 experiments	best	0.969	0.953	0.939	0.915	0.84	0.823
Methyl HT-SELEX, 1 experiments	median	0.969	0.949	0.939	0.915	0.84	0.823
Methyl HT-SELEX, 1 experiments	best	0.969	0.949	0.939	0.915	0.84	0.823
Non-Methyl HT-SELEX, 3 experiments	median	0.953	0.941	0.782	0.794	0.639	0.674
Non-Methyl HT-SELEX, 3 experiments	best	0.964	0.953	0.846	0.83	0.731	0.728

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.056	0.115	0.017	0.01

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.H12INVITRO.0.S.B.pcm
PWM	SRBP2.H12INVITRO.0.S.B.pwm
PFM	SRBP2.H12INVITRO.0.S.B.pfm
Alignment	SRBP2.H12INVITRO.0.S.B.words.tsv
Threshold to P-value map	SRBP2.H12INVITRO.0.S.B.thr
Motif in other formats
JASPAR format	SRBP2.H12INVITRO.0.S.B_jaspar_format.txt
MEME format	SRBP2.H12INVITRO.0.S.B_meme_format.meme
Transfac format	SRBP2.H12INVITRO.0.S.B_transfac_format.txt
Homer format	SRBP2.H12INVITRO.0.S.B_homer_format_0.001.txt SRBP2.H12INVITRO.0.S.B_homer_format_0.0005.txt SRBP2.H12INVITRO.0.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	250.0	94.0	245.0	217.0
02	140.75	102.75	421.75	140.75
03	467.0	1.0	335.0	3.0
04	8.0	0.0	4.0	794.0
05	9.0	523.0	273.0	1.0
06	481.0	0.0	325.0	0.0
07	0.0	803.0	2.0	1.0
08	0.0	0.0	806.0	0.0
09	0.0	0.0	0.0	806.0
10	0.0	0.0	806.0	0.0
11	803.0	0.0	3.0	0.0
12	0.75	36.75	68.75	699.75
13	163.0	234.0	256.0	153.0

PFM

	A	C	G	T
01	0.31	0.117	0.304	0.269
02	0.175	0.127	0.523	0.175
03	0.579	0.001	0.416	0.004
04	0.01	0.0	0.005	0.985
05	0.011	0.649	0.339	0.001
06	0.597	0.0	0.403	0.0
07	0.0	0.996	0.002	0.001
08	0.0	0.0	1.0	0.0
09	0.0	0.0	0.0	1.0
10	0.0	0.0	1.0	0.0
11	0.996	0.0	0.004	0.0
12	0.001	0.046	0.085	0.868
13	0.202	0.29	0.318	0.19

PWM

	A	C	G	T
01	0.214	-0.753	0.194	0.074
02	-0.355	-0.666	0.734	-0.355
03	0.836	-4.331	0.505	-3.772
04	-3.045	-4.799	-3.578	1.365
05	-2.946	0.949	0.302	-4.331
06	0.865	-4.799	0.475	-4.799
07	-4.799	1.376	-4.013	-4.331
08	-4.799	-4.799	1.38	-4.799
09	-4.799	-4.799	-4.799	1.38
10	-4.799	-4.799	1.38	-4.799
11	1.376	-4.799	-3.772	-4.799
12	-4.429	-1.665	-1.06	1.239
13	-0.21	0.148	0.238	-0.273

Standard thresholds

P-value	Threshold
0.001	0.42116
0.0005	2.05596
0.0001	5.58295