SOX10.H12CORE.1.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SOX10.H12CORE.1.PSM.A
Gene (human)	SOX10 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Sox10
Gene synonyms (mouse)	Sox-10, Sox21
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	11
Consensus	nbCATTGTYhn
GC content	38.4%
Information content (bits; total / per base)	12.068 / 1.097
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9713

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 (6)	0.793	0.82	0.642	0.659	0.78	0.814	2.137	2.248	115.398	134.167
Mouse	1 (6)	0.708	0.766	0.549	0.594	0.703	0.748	1.753	1.909	58.115	106.131

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.975	0.956	0.904	0.907	0.722	0.756
Overall, 5 experiments	best	0.993	0.988	0.984	0.974	0.924	0.919
Methyl HT-SELEX, 2 experiments	median	0.991	0.986	0.944	0.94	0.823	0.838
Methyl HT-SELEX, 2 experiments	best	0.993	0.988	0.984	0.974	0.924	0.919
Non-Methyl HT-SELEX, 3 experiments	median	0.805	0.798	0.66	0.668	0.594	0.603
Non-Methyl HT-SELEX, 3 experiments	best	0.975	0.956	0.941	0.919	0.785	0.793

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.668	0.377	0.594	0.382

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 E {4.1.1.5} (TFClass)
TFClass ID	TFClass: 4.1.1.5.3
HGNC	HGNC:11190
MGI	MGI:98358
EntrezGene (human)	GeneID:6663 (SSTAR profile)
EntrezGene (mouse)	GeneID:20665 (SSTAR profile)
UniProt ID (human)	SOX10_HUMAN
UniProt ID (mouse)	SOX10_MOUSE
UniProt AC (human)	P56693 (TFClass)
UniProt AC (mouse)	Q04888 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 1 mouse
HT-SELEX	3
Methyl-HT-SELEX	2

PCM	SOX10.H12CORE.1.PSM.A.pcm
PWM	SOX10.H12CORE.1.PSM.A.pwm
PFM	SOX10.H12CORE.1.PSM.A.pfm
Alignment	SOX10.H12CORE.1.PSM.A.words.tsv
Threshold to P-value map	SOX10.H12CORE.1.PSM.A.thr
Motif in other formats
JASPAR format	SOX10.H12CORE.1.PSM.A_jaspar_format.txt
MEME format	SOX10.H12CORE.1.PSM.A_meme_format.meme
Transfac format	SOX10.H12CORE.1.PSM.A_transfac_format.txt
Homer format	SOX10.H12CORE.1.PSM.A_homer_format_0.001.txt SOX10.H12CORE.1.PSM.A_homer_format_0.0005.txt SOX10.H12CORE.1.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1882.0	2596.0	2569.0	2666.0
02	410.5	4986.5	2248.5	2067.5
03	117.0	7107.0	99.0	2390.0
04	9084.0	5.0	3.0	621.0
05	0.0	0.0	0.0	9713.0
06	0.0	0.0	0.0	9713.0
07	0.0	0.0	9713.0	0.0
08	0.0	0.0	0.0	9713.0
09	745.0	1247.0	582.0	7139.0
10	1722.5	4536.5	809.5	2644.5
11	1941.0	2105.0	2423.0	3244.0

PFM

	A	C	G	T
01	0.194	0.267	0.264	0.274
02	0.042	0.513	0.231	0.213
03	0.012	0.732	0.01	0.246
04	0.935	0.001	0.0	0.064
05	0.0	0.0	0.0	1.0
06	0.0	0.0	0.0	1.0
07	0.0	0.0	1.0	0.0
08	0.0	0.0	0.0	1.0
09	0.077	0.128	0.06	0.735
10	0.177	0.467	0.083	0.272
11	0.2	0.217	0.249	0.334

PWM

	A	C	G	T
01	-0.255	0.067	0.056	0.093
02	-1.773	0.719	-0.077	-0.161
03	-3.014	1.073	-3.178	-0.016
04	1.319	-5.809	-6.129	-1.361
05	-6.965	-6.965	-6.965	1.386
06	-6.965	-6.965	-6.965	1.386
07	-6.965	-6.965	1.386	-6.965
08	-6.965	-6.965	-6.965	1.386
09	-1.179	-0.666	-1.425	1.078
10	-0.343	0.625	-1.097	0.085
11	-0.224	-0.143	-0.002	0.289

Standard thresholds

P-value	Threshold
0.001	3.04964
0.0005	5.089145
0.0001	7.655585