HME1.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HME1.H12INVITRO.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	11
Consensus	nbYAATTAvbn
GC content	34.92%
Information content (bits; total / per base)	11.077 / 1.007
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	2185

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)	0.739	0.739	0.62	0.62	0.7	0.7	2.016	2.016	10.699	10.699

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.925	0.896	0.808	0.788	0.676	0.685
Overall, 6 experiments	best	0.959	0.931	0.938	0.905	0.894	0.857
Methyl HT-SELEX, 1 experiments	median	0.959	0.931	0.938	0.905	0.892	0.857
Methyl HT-SELEX, 1 experiments	best	0.959	0.931	0.938	0.905	0.892	0.857
Non-Methyl HT-SELEX, 5 experiments	median	0.92	0.889	0.801	0.781	0.672	0.68
Non-Methyl HT-SELEX, 5 experiments	best	0.95	0.917	0.931	0.893	0.894	0.853

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.H12INVITRO.0.PSM.A.pcm
PWM	HME1.H12INVITRO.0.PSM.A.pwm
PFM	HME1.H12INVITRO.0.PSM.A.pfm
Alignment	HME1.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	HME1.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	HME1.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	HME1.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	HME1.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	HME1.H12INVITRO.0.PSM.A_homer_format_0.001.txt HME1.H12INVITRO.0.PSM.A_homer_format_0.0005.txt HME1.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	633.75	727.75	453.75	369.75
02	232.0	1093.0	604.0	256.0
03	10.0	1000.0	0.0	1175.0
04	2055.0	127.0	0.0	3.0
05	2174.0	0.0	11.0	0.0
06	0.0	0.0	0.0	2185.0
07	0.0	145.0	0.0	2040.0
08	2153.0	0.0	32.0	0.0
09	710.0	585.0	794.0	96.0
10	77.0	1112.0	444.0	552.0
11	474.5	575.5	688.5	446.5

PFM

	A	C	G	T
01	0.29	0.333	0.208	0.169
02	0.106	0.5	0.276	0.117
03	0.005	0.458	0.0	0.538
04	0.941	0.058	0.0	0.001
05	0.995	0.0	0.005	0.0
06	0.0	0.0	0.0	1.0
07	0.0	0.066	0.0	0.934
08	0.985	0.0	0.015	0.0
09	0.325	0.268	0.363	0.044
10	0.035	0.509	0.203	0.253
11	0.217	0.263	0.315	0.204

PWM

	A	C	G	T
01	0.148	0.286	-0.185	-0.389
02	-0.852	0.692	0.1	-0.754
03	-3.828	0.603	-5.653	0.764
04	1.322	-1.447	-5.653	-4.713
05	1.379	-5.653	-3.748	-5.653
06	-5.653	-5.653	-5.653	1.384
07	-5.653	-1.317	-5.653	1.315
08	1.369	-5.653	-2.783	-5.653
09	0.261	0.068	0.373	-1.722
10	-1.938	0.709	-0.206	0.01
11	-0.14	0.052	0.231	-0.201

Standard thresholds

P-value	Threshold
0.001	4.16126
0.0005	5.51405
0.0001	7.904885