HME1.H12CORE.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HME1.H12CORE.0.PSM.A
Gene (human)	EN1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	En1
Gene synonyms (mouse)	En-1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	13
Consensus	nnvTAATTARbnn
GC content	35.93%
Information content (bits; total / per base)	11.85 / 0.912
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	2375

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 (2)	0.733	0.733	0.624	0.624	0.713	0.713	2.068	2.068	12.032	12.032

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.928	0.901	0.804	0.787	0.672	0.683
Overall, 6 experiments	best	0.958	0.93	0.938	0.904	0.886	0.848
Methyl HT-SELEX, 1 experiments	median	0.958	0.93	0.938	0.904	0.88	0.848
Methyl HT-SELEX, 1 experiments	best	0.958	0.93	0.938	0.904	0.88	0.848
Non-Methyl HT-SELEX, 5 experiments	median	0.923	0.893	0.797	0.78	0.669	0.679
Non-Methyl HT-SELEX, 5 experiments	best	0.95	0.917	0.929	0.891	0.886	0.847

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	NK-related {3.1.2} (TFClass)
TF subfamily	EN {3.1.2.7} (TFClass)
TFClass ID	TFClass: 3.1.2.7.1
HGNC	HGNC:3342
MGI	MGI:95389
EntrezGene (human)	GeneID:2019 (SSTAR profile)
EntrezGene (mouse)	GeneID:13798 (SSTAR profile)
UniProt ID (human)	HME1_HUMAN
UniProt ID (mouse)	HME1_MOUSE
UniProt AC (human)	Q05925 (TFClass)
UniProt AC (mouse)	P09065 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 0 mouse
HT-SELEX	5
Methyl-HT-SELEX	1

PCM	HME1.H12CORE.0.PSM.A.pcm
PWM	HME1.H12CORE.0.PSM.A.pwm
PFM	HME1.H12CORE.0.PSM.A.pfm
Alignment	HME1.H12CORE.0.PSM.A.words.tsv
Threshold to P-value map	HME1.H12CORE.0.PSM.A.thr
Motif in other formats
JASPAR format	HME1.H12CORE.0.PSM.A_jaspar_format.txt
MEME format	HME1.H12CORE.0.PSM.A_meme_format.meme
Transfac format	HME1.H12CORE.0.PSM.A_transfac_format.txt
Homer format	HME1.H12CORE.0.PSM.A_homer_format_0.001.txt HME1.H12CORE.0.PSM.A_homer_format_0.0005.txt HME1.H12CORE.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	614.25	469.25	737.25	554.25
02	673.5	499.5	817.5	384.5
03	324.0	965.0	875.0	211.0
04	7.0	805.0	6.0	1557.0
05	2285.0	64.0	26.0	0.0
06	2375.0	0.0	0.0	0.0
07	0.0	0.0	0.0	2375.0
08	0.0	0.0	0.0	2375.0
09	2354.0	17.0	2.0	2.0
10	742.0	151.0	1364.0	118.0
11	101.0	808.0	729.0	737.0
12	479.5	588.5	903.5	403.5
13	621.75	639.75	624.75	488.75

PFM

	A	C	G	T
01	0.259	0.198	0.31	0.233
02	0.284	0.21	0.344	0.162
03	0.136	0.406	0.368	0.089
04	0.003	0.339	0.003	0.656
05	0.962	0.027	0.011	0.0
06	1.0	0.0	0.0	0.0
07	0.0	0.0	0.0	1.0
08	0.0	0.0	0.0	1.0
09	0.991	0.007	0.001	0.001
10	0.312	0.064	0.574	0.05
11	0.043	0.34	0.307	0.31
12	0.202	0.248	0.38	0.17
13	0.262	0.269	0.263	0.206

PWM

	A	C	G	T
01	0.034	-0.234	0.216	-0.069
02	0.126	-0.172	0.319	-0.433
03	-0.603	0.484	0.387	-1.029
04	-4.199	0.304	-4.317	0.962
05	1.345	-2.201	-3.06	-5.725
06	1.384	-5.725	-5.725	-5.725
07	-5.725	-5.725	-5.725	1.384
08	-5.725	-5.725	-5.725	1.384
09	1.375	-3.448	-5.018	-5.018
10	0.222	-1.36	0.83	-1.603
11	-1.756	0.307	0.205	0.215
12	-0.213	-0.009	0.419	-0.385
13	0.046	0.074	0.051	-0.194

Standard thresholds

P-value	Threshold
0.001	3.220165
0.0005	4.818915
0.0001	7.899775