SOX11.H12RSNP.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SOX11.H12RSNP.1.S.B
Gene (human)	SOX11 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Sox11
Gene synonyms (mouse)	Sox-11
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	13
Consensus	ndbTGTTCGSddd
GC content	53.83%
Information content (bits; total / per base)	11.332 / 0.872
Data sources	HT-SELEX
Aligned words	1539

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)	0.595	0.655	0.411	0.457	0.484	0.576	0.989	1.291	4.853	9.237
Mouse	2 (8)	0.593	0.613	0.408	0.421	0.564	0.578	1.148	1.195	46.96	61.284

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.626	0.61	0.57	0.564	0.54	0.54
Non-Methyl HT-SELEX, 2 experiments	best	0.64	0.623	0.576	0.571	0.544	0.545

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.557	0.14	0.202	0.16

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

PCM	SOX11.H12RSNP.1.S.B.pcm
PWM	SOX11.H12RSNP.1.S.B.pwm
PFM	SOX11.H12RSNP.1.S.B.pfm
Alignment	SOX11.H12RSNP.1.S.B.words.tsv
Threshold to P-value map	SOX11.H12RSNP.1.S.B.thr
Motif in other formats
JASPAR format	SOX11.H12RSNP.1.S.B_jaspar_format.txt
MEME format	SOX11.H12RSNP.1.S.B_meme_format.meme
Transfac format	SOX11.H12RSNP.1.S.B_transfac_format.txt
Homer format	SOX11.H12RSNP.1.S.B_homer_format_0.001.txt SOX11.H12RSNP.1.S.B_homer_format_0.0005.txt SOX11.H12RSNP.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	346.75	439.75	410.75	341.75
02	622.75	225.75	340.75	349.75
03	148.0	201.0	660.0	530.0
04	43.0	64.0	84.0	1348.0
05	20.0	7.0	1486.0	26.0
06	0.0	0.0	84.0	1455.0
07	3.0	0.0	82.0	1454.0
08	48.0	1473.0	2.0	16.0
09	31.0	52.0	1431.0	25.0
10	62.0	190.0	1133.0	154.0
11	202.0	139.0	456.0	742.0
12	292.5	205.5	759.5	281.5
13	347.0	205.0	638.0	349.0

PFM

	A	C	G	T
01	0.225	0.286	0.267	0.222
02	0.405	0.147	0.221	0.227
03	0.096	0.131	0.429	0.344
04	0.028	0.042	0.055	0.876
05	0.013	0.005	0.966	0.017
06	0.0	0.0	0.055	0.945
07	0.002	0.0	0.053	0.945
08	0.031	0.957	0.001	0.01
09	0.02	0.034	0.93	0.016
10	0.04	0.123	0.736	0.1
11	0.131	0.09	0.296	0.482
12	0.19	0.134	0.494	0.183
13	0.225	0.133	0.415	0.227

PWM

	A	C	G	T
01	-0.103	0.133	0.065	-0.118
02	0.48	-0.53	-0.121	-0.095
03	-0.948	-0.645	0.538	0.319
04	-2.154	-1.77	-1.505	1.25
05	-2.874	-3.779	1.348	-2.631
06	-5.35	-5.35	-1.505	1.327
07	-4.382	-5.35	-1.529	1.326
08	-2.049	1.339	-4.613	-3.076
09	-2.466	-1.971	1.31	-2.668
10	-1.801	-0.701	1.077	-0.909
11	-0.64	-1.01	0.169	0.654
12	-0.273	-0.623	0.678	-0.311
13	-0.103	-0.625	0.504	-0.097

Standard thresholds

P-value	Threshold
0.001	4.33551
0.0005	5.33117
0.0001	7.30396