SOX8.H12CORE.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SOX8.H12CORE.0.PSM.A
Gene (human)	SOX8 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Sox8
Gene synonyms (mouse)	Sox-8
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	17
Consensus	vMRddvnnbYWTTGTbb
GC content	40.84%
Information content (bits; total / per base)	11.418 / 0.672
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1000

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	3 (15)	0.789	0.838	0.726	0.774	0.782	0.831	2.85	3.105	116.208	165.0

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.988	0.983	0.967	0.957	0.914	0.907
Overall, 4 experiments	best	1.0	0.999	0.999	0.999	0.998	0.998
Methyl HT-SELEX, 2 experiments	median	0.989	0.983	0.968	0.958	0.916	0.91
Methyl HT-SELEX, 2 experiments	best	1.0	0.999	0.999	0.999	0.998	0.998
Non-Methyl HT-SELEX, 2 experiments	median	0.973	0.963	0.932	0.919	0.868	0.865
Non-Methyl HT-SELEX, 2 experiments	best	1.0	0.999	0.998	0.998	0.994	0.992

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.791	0.528	0.676	0.455

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: 4.1.1.5.1
HGNC	HGNC:11203
MGI	MGI:98370
EntrezGene (human)	GeneID:30812 (SSTAR profile)
EntrezGene (mouse)	GeneID:20681 (SSTAR profile)
UniProt ID (human)	SOX8_HUMAN
UniProt ID (mouse)	SOX8_MOUSE
UniProt AC (human)	P57073 (TFClass)
UniProt AC (mouse)	Q04886 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	3 human, 0 mouse
HT-SELEX	2
Methyl-HT-SELEX	2

PCM	SOX8.H12CORE.0.PSM.A.pcm
PWM	SOX8.H12CORE.0.PSM.A.pwm
PFM	SOX8.H12CORE.0.PSM.A.pfm
Alignment	SOX8.H12CORE.0.PSM.A.words.tsv
Threshold to P-value map	SOX8.H12CORE.0.PSM.A.thr
Motif in other formats
JASPAR format	SOX8.H12CORE.0.PSM.A_jaspar_format.txt
MEME format	SOX8.H12CORE.0.PSM.A_meme_format.meme
Transfac format	SOX8.H12CORE.0.PSM.A_transfac_format.txt
Homer format	SOX8.H12CORE.0.PSM.A_homer_format_0.001.txt SOX8.H12CORE.0.PSM.A_homer_format_0.0005.txt SOX8.H12CORE.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	387.0	367.0	165.0	81.0
02	768.0	130.0	51.0	51.0
03	695.0	56.0	164.0	85.0
04	444.0	47.0	223.0	286.0
05	334.0	72.0	498.0	96.0
06	299.0	158.0	498.0	45.0
07	353.0	213.0	282.0	152.0
08	185.0	240.0	352.0	223.0
09	69.0	410.0	211.0	310.0
10	46.0	737.0	57.0	160.0
11	505.0	49.0	17.0	429.0
12	8.0	83.0	44.0	865.0
13	4.0	20.0	7.0	969.0
14	20.0	39.0	932.0	9.0
15	43.0	9.0	7.0	941.0
16	78.0	193.0	205.0	524.0
17	86.0	314.0	92.0	508.0

PFM

	A	C	G	T
01	0.387	0.367	0.165	0.081
02	0.768	0.13	0.051	0.051
03	0.695	0.056	0.164	0.085
04	0.444	0.047	0.223	0.286
05	0.334	0.072	0.498	0.096
06	0.299	0.158	0.498	0.045
07	0.353	0.213	0.282	0.152
08	0.185	0.24	0.352	0.223
09	0.069	0.41	0.211	0.31
10	0.046	0.737	0.057	0.16
11	0.505	0.049	0.017	0.429
12	0.008	0.083	0.044	0.865
13	0.004	0.02	0.007	0.969
14	0.02	0.039	0.932	0.009
15	0.043	0.009	0.007	0.941
16	0.078	0.193	0.205	0.524
17	0.086	0.314	0.092	0.508

PWM

	A	C	G	T
01	0.435	0.382	-0.412	-1.113
02	1.118	-0.648	-1.563	-1.563
03	1.018	-1.473	-0.418	-1.066
04	0.571	-1.642	-0.113	0.134
05	0.288	-1.228	0.686	-0.946
06	0.178	-0.455	0.686	-1.684
07	0.343	-0.159	0.12	-0.493
08	-0.299	-0.041	0.34	-0.113
09	-1.27	0.492	-0.168	0.214
10	-1.663	1.077	-1.455	-0.442
11	0.7	-1.602	-2.598	0.537
12	-3.253	-1.089	-1.706	1.236
13	-3.783	-2.45	-3.362	1.35
14	-2.45	-1.821	1.311	-3.156
15	-1.728	-3.156	-3.362	1.32
16	-1.15	-0.257	-0.197	0.736
17	-1.054	0.227	-0.988	0.706

Standard thresholds

P-value	Threshold
0.001	4.38441
0.0005	5.29701
0.0001	7.17951