SOX11.H14RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SOX11.H14RSNP.0.P.B
Gene (human)	SOX11 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Sox11
Gene synonyms (mouse)	Sox-11
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	bYCTTTGTYYhb
GC content	45.14%
Information content (bits; total / per base)	13.436 / 1.12
Data sources	ChIP-Seq
Aligned words	1000
Previous names	SOX11.H12RSNP.0.P.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	1 (4)	0.695	0.86	0.575	0.777	0.762	0.886	2.592	3.713	21.237	42.222
Mouse	2 (8)	0.923	0.94	0.845	0.877	0.941	0.955	4.046	4.264	511.39	579.229

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.531	0.522	0.519	0.514	0.512	0.51
Non-Methyl HT-SELEX, 2 experiments	best	0.539	0.527	0.524	0.517	0.514	0.512

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.669	0.338	0.607	0.398

TF superclass	Other all-alpha-helical DNA-binding domains {4} (TFClass)
TF class	High-mobility group (HMG) domain factors {4.1} (TFClass)
TF family	SOX-related {4.1.1} (TFClass)
TF subfamily	Group C {4.1.1.3} (TFClass)
TFClass ID	TFClass: 4.1.1.3.2
HGNC	HGNC:11191
MGI	MGI:98359
EntrezGene (human)	GeneID:6664 (SSTAR profile)
EntrezGene (mouse)	GeneID:20666 (SSTAR profile)
UniProt ID (human)	SOX11_HUMAN
UniProt ID (mouse)	SOX11_MOUSE
UniProt AC (human)	P35716 (TFClass)
UniProt AC (mouse)	Q7M6Y2 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 2 mouse
HT-SELEX	2
Methyl-HT-SELEX	0
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	SOX11.H14RSNP.0.P.B.pcm
PWM	SOX11.H14RSNP.0.P.B.pwm
PFM	SOX11.H14RSNP.0.P.B.pfm
Threshold to P-value map	SOX11.H14RSNP.0.P.B.thr
Motif in other formats
JASPAR format	SOX11.H14RSNP.0.P.B_jaspar_format.txt
MEME format	SOX11.H14RSNP.0.P.B_meme_format.meme
Transfac format	SOX11.H14RSNP.0.P.B_transfac_format.txt
Homer format	SOX11.H14RSNP.0.P.B_homer_format_0.001.txt SOX11.H14RSNP.0.P.B_homer_format_0.0005.txt SOX11.H14RSNP.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	38.0	343.0	264.0	355.0
02	3.0	535.0	132.0	330.0
03	1.0	916.0	0.0	83.0
04	92.0	0.0	0.0	908.0
05	0.0	3.0	0.0	997.0
06	0.0	0.0	2.0	998.0
07	3.0	13.0	982.0	2.0
08	0.0	2.0	0.0	998.0
09	12.0	319.0	94.0	575.0
10	22.0	681.0	64.0	233.0
11	130.0	316.0	121.0	433.0
12	135.0	415.0	215.0	235.0

PFM

	A	C	G	T
01	0.038	0.343	0.264	0.355
02	0.003	0.535	0.132	0.33
03	0.001	0.916	0.0	0.083
04	0.092	0.0	0.0	0.908
05	0.0	0.003	0.0	0.997
06	0.0	0.0	0.002	0.998
07	0.003	0.013	0.982	0.002
08	0.0	0.002	0.0	0.998
09	0.012	0.319	0.094	0.575
10	0.022	0.681	0.064	0.233
11	0.13	0.316	0.121	0.433
12	0.135	0.415	0.215	0.235

PWM

	A	C	G	T
01	-1.846	0.314	0.054	0.349
02	-3.975	0.757	-0.633	0.276
03	-4.525	1.294	-4.982	-1.089
04	-0.988	-4.982	-4.982	1.285
05	-4.982	-3.975	-4.982	1.378
06	-4.982	-4.982	-4.213	1.379
07	-3.975	-2.839	1.363	-4.213
08	-4.982	-4.213	-4.982	1.379
09	-2.909	0.242	-0.967	0.829
10	-2.362	0.998	-1.343	-0.07
11	-0.648	0.233	-0.718	0.546
12	-0.61	0.504	-0.15	-0.061

Standard thresholds

P-value	Threshold
0.001	2.96811
0.0005	4.242125
0.0001	7.15615