SOX10.H12INVIVO.2.S.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SOX10.H12INVIVO.2.S.C
Gene (human)	SOX10 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Sox10
Gene synonyms (mouse)	Sox-10, Sox21
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	C

Motif length	14
Consensus	nRYTGTTCGSddbn
GC content	50.5%
Information content (bits; total / per base)	12.699 / 0.907
Data sources	HT-SELEX
Aligned words	2474

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)	0.662	0.675	0.481	0.487	0.577	0.594	1.267	1.307	27.677	33.42
Mouse	1 (6)	0.593	0.622	0.424	0.45	0.568	0.589	1.249	1.31	11.825	16.31

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.861	0.817	0.741	0.729	0.651	0.646
Overall, 5 experiments	best	0.877	0.85	0.818	0.768	0.742	0.706
Methyl HT-SELEX, 2 experiments	median	0.849	0.799	0.775	0.731	0.696	0.67
Methyl HT-SELEX, 2 experiments	best	0.876	0.827	0.818	0.768	0.742	0.706
Non-Methyl HT-SELEX, 3 experiments	median	0.861	0.817	0.741	0.729	0.642	0.646
Non-Methyl HT-SELEX, 3 experiments	best	0.877	0.85	0.773	0.735	0.687	0.667

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.555	0.209	0.05	0.007

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.H12INVIVO.2.S.C.pcm
PWM	SOX10.H12INVIVO.2.S.C.pwm
PFM	SOX10.H12INVIVO.2.S.C.pfm
Alignment	SOX10.H12INVIVO.2.S.C.words.tsv
Threshold to P-value map	SOX10.H12INVIVO.2.S.C.thr
Motif in other formats
JASPAR format	SOX10.H12INVIVO.2.S.C_jaspar_format.txt
MEME format	SOX10.H12INVIVO.2.S.C_meme_format.meme
Transfac format	SOX10.H12INVIVO.2.S.C_transfac_format.txt
Homer format	SOX10.H12INVIVO.2.S.C_homer_format_0.001.txt SOX10.H12INVIVO.2.S.C_homer_format_0.0005.txt SOX10.H12INVIVO.2.S.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	548.0	651.0	564.0	711.0
02	1470.0	197.0	485.0	322.0
03	162.0	403.0	378.0	1531.0
04	20.0	35.0	72.0	2347.0
05	21.0	17.0	2427.0	9.0
06	5.0	6.0	22.0	2441.0
07	12.0	2.0	36.0	2424.0
08	53.0	2358.0	38.0	25.0
09	81.0	104.0	2228.0	61.0
10	152.0	338.0	1648.0	336.0
11	236.0	192.0	743.0	1303.0
12	290.0	272.0	1415.0	497.0
13	358.75	372.75	1152.75	589.75
14	445.5	423.5	911.5	693.5

PFM

	A	C	G	T
01	0.222	0.263	0.228	0.287
02	0.594	0.08	0.196	0.13
03	0.065	0.163	0.153	0.619
04	0.008	0.014	0.029	0.949
05	0.008	0.007	0.981	0.004
06	0.002	0.002	0.009	0.987
07	0.005	0.001	0.015	0.98
08	0.021	0.953	0.015	0.01
09	0.033	0.042	0.901	0.025
10	0.061	0.137	0.666	0.136
11	0.095	0.078	0.3	0.527
12	0.117	0.11	0.572	0.201
13	0.145	0.151	0.466	0.238
14	0.18	0.171	0.368	0.28

PWM

	A	C	G	T
01	-0.121	0.051	-0.092	0.139
02	0.864	-1.137	-0.242	-0.65
03	-1.331	-0.427	-0.49	0.905
04	-3.342	-2.821	-2.127	1.331
05	-3.297	-3.488	1.365	-4.037
06	-4.491	-4.357	-3.254	1.371
07	-3.795	-5.056	-2.794	1.364
08	-2.424	1.336	-2.743	-3.136
09	-2.012	-1.767	1.279	-2.288
10	-1.394	-0.602	0.978	-0.608
11	-0.958	-1.163	0.183	0.743
12	-0.754	-0.817	0.826	-0.218
13	-0.542	-0.504	0.621	-0.047
14	-0.327	-0.377	0.387	0.114

Standard thresholds

P-value	Threshold
0.001	3.78391
0.0005	4.85856
0.0001	7.11886