SRBP2.H12INVITRO.2.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SRBP2.H12INVITRO.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	nRTSRKGTGATn
GC content	48.61%
Information content (bits; total / per base)	13.377 / 1.115
Data sources	Methyl-HT-SELEX
Aligned words	7671

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)	0.718	0.735	0.537	0.554	0.706	0.722	2.006	2.059	37.706	57.18

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.946	0.923	0.801	0.794	0.674	0.688
Overall, 4 experiments	best	0.99	0.985	0.962	0.951	0.866	0.858
Methyl HT-SELEX, 1 experiments	median	0.99	0.985	0.962	0.951	0.866	0.858
Methyl HT-SELEX, 1 experiments	best	0.99	0.985	0.962	0.951	0.866	0.858
Non-Methyl HT-SELEX, 3 experiments	median	0.937	0.909	0.779	0.786	0.636	0.67
Non-Methyl HT-SELEX, 3 experiments	best	0.955	0.937	0.823	0.802	0.711	0.706

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.021	0.052	-0.015	-0.012

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.2.M.C.pcm
PWM	SRBP2.H12INVITRO.2.M.C.pwm
PFM	SRBP2.H12INVITRO.2.M.C.pfm
Alignment	SRBP2.H12INVITRO.2.M.C.words.tsv
Threshold to P-value map	SRBP2.H12INVITRO.2.M.C.thr
Motif in other formats
JASPAR format	SRBP2.H12INVITRO.2.M.C_jaspar_format.txt
MEME format	SRBP2.H12INVITRO.2.M.C_meme_format.meme
Transfac format	SRBP2.H12INVITRO.2.M.C_transfac_format.txt
Homer format	SRBP2.H12INVITRO.2.M.C_homer_format_0.001.txt SRBP2.H12INVITRO.2.M.C_homer_format_0.0005.txt SRBP2.H12INVITRO.2.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1737.5	1195.5	2804.5	1933.5
02	4694.0	222.0	2679.0	76.0
03	160.0	141.0	87.0	7283.0
04	241.0	4100.0	3287.0	43.0
05	4425.0	6.0	3107.0	133.0
06	12.0	1433.0	4697.0	1529.0
07	97.0	230.0	7344.0	0.0
08	15.0	6.0	1.0	7649.0
09	8.0	21.0	7637.0	5.0
10	7449.0	13.0	157.0	52.0
11	35.5	1044.5	406.5	6184.5
12	1599.75	2348.75	1779.75	1942.75

PFM

	A	C	G	T
01	0.227	0.156	0.366	0.252
02	0.612	0.029	0.349	0.01
03	0.021	0.018	0.011	0.949
04	0.031	0.534	0.428	0.006
05	0.577	0.001	0.405	0.017
06	0.002	0.187	0.612	0.199
07	0.013	0.03	0.957	0.0
08	0.002	0.001	0.0	0.997
09	0.001	0.003	0.996	0.001
10	0.971	0.002	0.02	0.007
11	0.005	0.136	0.053	0.806
12	0.209	0.306	0.232	0.253

PWM

	A	C	G	T
01	-0.099	-0.472	0.38	0.008
02	0.894	-2.147	0.334	-3.2
03	-2.471	-2.596	-3.069	1.334
04	-2.066	0.759	0.538	-3.748
05	0.835	-5.452	0.482	-2.653
06	-4.904	-0.291	0.895	-0.226
07	-2.963	-2.112	1.342	-6.755
08	-4.713	-5.452	-6.386	1.383
09	-5.234	-4.414	1.381	-5.581
10	1.356	-4.836	-2.49	-3.567
11	-3.929	-0.607	-1.547	1.17
12	-0.181	0.203	-0.075	0.013

Standard thresholds

P-value	Threshold
0.001	2.97511
0.0005	4.27857
0.0001	6.914525