EOMES.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	EOMES.H12INVIVO.0.PSM.A
Gene (human)	EOMES (GeneCards)
Gene synonyms (human)	TBR2
Gene (mouse)	Eomes
Gene synonyms (mouse)	Tbr2
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	nRRGTGWbAR
GC content	45.05%
Information content (bits; total / per base)	10.008 / 1.001
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	4 (24)	0.798	0.843	0.686	0.738	0.777	0.82	2.428	2.675	110.372	233.886
Mouse	4 (20)	0.847	0.907	0.759	0.83	0.808	0.865	2.661	2.87	129.554	217.108

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.965	0.948	0.934	0.908	0.868	0.848
Overall, 4 experiments	best	0.997	0.995	0.978	0.971	0.896	0.878
Methyl HT-SELEX, 1 experiments	median	0.967	0.951	0.943	0.917	0.896	0.866
Methyl HT-SELEX, 1 experiments	best	0.967	0.951	0.943	0.917	0.896	0.866
Non-Methyl HT-SELEX, 3 experiments	median	0.963	0.944	0.926	0.898	0.859	0.83
Non-Methyl HT-SELEX, 3 experiments	best	0.997	0.995	0.978	0.971	0.877	0.878

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.623	0.044	0.305	0.14

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	T-Box factors {6.5} (TFClass)
TF family	TBrain-related {6.5.2} (TFClass)
TF subfamily	{6.5.2.0} (TFClass)
TFClass ID	TFClass: 6.5.2.0.2
HGNC	HGNC:3372
MGI	MGI:1201683
EntrezGene (human)	GeneID:8320 (SSTAR profile)
EntrezGene (mouse)	GeneID:13813 (SSTAR profile)
UniProt ID (human)	EOMES_HUMAN
UniProt ID (mouse)	EOMES_MOUSE
UniProt AC (human)	O95936 (TFClass)
UniProt AC (mouse)	O54839 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	4 human, 4 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	EOMES.H12INVIVO.0.PSM.A.pcm
PWM	EOMES.H12INVIVO.0.PSM.A.pwm
PFM	EOMES.H12INVIVO.0.PSM.A.pfm
Alignment	EOMES.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	EOMES.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	EOMES.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	EOMES.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	EOMES.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	EOMES.H12INVIVO.0.PSM.A_homer_format_0.001.txt EOMES.H12INVIVO.0.PSM.A_homer_format_0.0005.txt EOMES.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	277.0	225.0	351.0	147.0
02	785.0	20.0	120.0	75.0
03	240.0	11.0	682.0	67.0
04	9.0	128.0	857.0	6.0
05	5.0	16.0	7.0	972.0
06	0.0	2.0	995.0	3.0
07	193.0	164.0	54.0	589.0
08	103.0	121.0	463.0	313.0
09	942.0	2.0	46.0	10.0
10	718.0	44.0	197.0	41.0

PFM

	A	C	G	T
01	0.277	0.225	0.351	0.147
02	0.785	0.02	0.12	0.075
03	0.24	0.011	0.682	0.067
04	0.009	0.128	0.857	0.006
05	0.005	0.016	0.007	0.972
06	0.0	0.002	0.995	0.003
07	0.193	0.164	0.054	0.589
08	0.103	0.121	0.463	0.313
09	0.942	0.002	0.046	0.01
10	0.718	0.044	0.197	0.041

PWM

	A	C	G	T
01	0.102	-0.105	0.337	-0.526
02	1.14	-2.45	-0.727	-1.188
03	-0.041	-2.985	0.999	-1.298
04	-3.156	-0.663	1.227	-3.484
05	-3.622	-2.653	-3.362	1.353
06	-4.982	-4.213	1.376	-3.975
07	-0.257	-0.418	-1.508	0.853
08	-0.877	-0.718	0.613	0.223
09	1.321	-4.213	-1.663	-3.066
10	1.051	-1.706	-0.236	-1.774

Standard thresholds

P-value	Threshold
0.001	4.77592
0.0005	5.67392
0.0001	7.453315