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

Motif	EOMES.H12CORE.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	11
Consensus	dAGGTGTKAdn
GC content	45.29%
Information content (bits; total / per base)	11.978 / 1.089
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	7865

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)	0.756	0.802	0.623	0.68	0.744	0.792	2.178	2.436	83.997	204.569
Mouse	4 (20)	0.822	0.881	0.733	0.8	0.802	0.854	2.623	2.807	126.111	187.456

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.98	0.968	0.958	0.94	0.892	0.88
Overall, 4 experiments	best	0.998	0.997	0.99	0.986	0.936	0.915
Methyl HT-SELEX, 1 experiments	median	0.986	0.977	0.971	0.957	0.936	0.915
Methyl HT-SELEX, 1 experiments	best	0.986	0.977	0.971	0.957	0.936	0.915
Non-Methyl HT-SELEX, 3 experiments	median	0.975	0.959	0.946	0.924	0.888	0.862
Non-Methyl HT-SELEX, 3 experiments	best	0.998	0.997	0.99	0.986	0.896	0.898

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.608	0.039	0.427	0.313

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

PCM

	A	C	G	T
01	3044.75	932.75	2004.75	1882.75
02	6591.75	129.75	840.75	302.75
03	616.0	304.0	6613.0	332.0
04	4.0	7.0	7850.0	4.0
05	2.0	207.0	7.0	7649.0
06	0.0	0.0	7865.0	0.0
07	344.0	798.0	48.0	6675.0
08	217.0	447.0	5853.0	1348.0
09	7104.0	154.0	315.0	292.0
10	3873.5	1004.5	1067.5	1919.5
11	2892.5	1303.5	1427.5	2241.5

PFM

	A	C	G	T
01	0.387	0.119	0.255	0.239
02	0.838	0.016	0.107	0.038
03	0.078	0.039	0.841	0.042
04	0.001	0.001	0.998	0.001
05	0.0	0.026	0.001	0.973
06	0.0	0.0	1.0	0.0
07	0.044	0.101	0.006	0.849
08	0.028	0.057	0.744	0.171
09	0.903	0.02	0.04	0.037
10	0.492	0.128	0.136	0.244
11	0.368	0.166	0.182	0.285

PWM

	A	C	G	T
01	0.437	-0.744	0.019	-0.043
02	1.209	-2.702	-0.848	-1.865
03	-1.158	-1.861	1.212	-1.773
04	-5.754	-5.361	1.384	-5.754
05	-6.14	-2.242	-5.361	1.358
06	-6.777	-6.777	1.385	-6.777
07	-1.738	-0.9	-3.668	1.221
08	-2.195	-1.477	1.09	-0.377
09	1.284	-2.534	-1.825	-1.901
10	0.677	-0.671	-0.61	-0.024
11	0.386	-0.41	-0.32	0.131

Standard thresholds

P-value	Threshold
0.001	4.06767
0.0005	5.137345
0.0001	7.31864