ETV5.H13RSNP.1.PM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ETV5.H13RSNP.1.PM.A
Gene (human)	ETV5 (GeneCards)
Gene synonyms (human)	ERM
Gene (mouse)	Etv5
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	13
Consensus	nvdCMGGAAGbdv
GC content	58.02%
Information content (bits; total / per base)	11.529 / 0.887
Data sources	ChIP-Seq + Methyl-HT-SELEX
Aligned words	1000
Previous names	ETV5.H12RSNP.1.PM.A

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	2 (12)	0.688	0.907	0.523	0.805	0.696	0.911	1.868	3.476	11.126	286.699
Mouse	4 (20)	0.725	0.806	0.68	0.774	0.73	0.806	2.705	3.288	56.264	105.824

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.992	0.986	0.985	0.977	0.932	0.928
Overall, 4 experiments	best	0.997	0.995	0.994	0.991	0.988	0.983
Methyl HT-SELEX, 1 experiments	median	0.997	0.995	0.994	0.991	0.988	0.983
Methyl HT-SELEX, 1 experiments	best	0.997	0.995	0.994	0.991	0.988	0.983
Non-Methyl HT-SELEX, 3 experiments	median	0.992	0.986	0.982	0.973	0.883	0.885
Non-Methyl HT-SELEX, 3 experiments	best	0.992	0.986	0.989	0.981	0.981	0.971

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.939	0.878	0.929	0.634
batch 2	0.925	0.789	0.893	0.648

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Tryptophan cluster factors {3.5} (TFClass)
TF family	Ets-related {3.5.2} (TFClass)
TF subfamily	ELK-like {3.5.2.2} (TFClass)
TFClass ID	TFClass: 3.5.2.2.6
HGNC	HGNC:3494
MGI	MGI:1096867
EntrezGene (human)	GeneID:2119 (SSTAR profile)
EntrezGene (mouse)	GeneID:104156 (SSTAR profile)
UniProt ID (human)	ETV5_HUMAN
UniProt ID (mouse)	ETV5_MOUSE
UniProt AC (human)	P41161 (TFClass)
UniProt AC (mouse)	Q9CXC9 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 4 mouse
HT-SELEX	3
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	ETV5.H13RSNP.1.PM.A.pcm
PWM	ETV5.H13RSNP.1.PM.A.pwm
PFM	ETV5.H13RSNP.1.PM.A.pfm
Threshold to P-value map	ETV5.H13RSNP.1.PM.A.thr
Motif in other formats
JASPAR format	ETV5.H13RSNP.1.PM.A_jaspar_format.txt
MEME format	ETV5.H13RSNP.1.PM.A_meme_format.meme
Transfac format	ETV5.H13RSNP.1.PM.A_transfac_format.txt
Homer format	ETV5.H13RSNP.1.PM.A_homer_format_0.001.txt ETV5.H13RSNP.1.PM.A_homer_format_0.0005.txt ETV5.H13RSNP.1.PM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	314.0	258.0	273.0	155.0
02	268.0	241.0	385.0	106.0
03	441.0	122.0	313.0	124.0
04	44.0	821.0	126.0	9.0
05	465.0	520.0	10.0	5.0
06	0.0	0.0	999.0	1.0
07	1.0	0.0	999.0	0.0
08	993.0	3.0	2.0	2.0
09	876.0	5.0	7.0	112.0
10	151.0	43.0	804.0	2.0
11	69.0	261.0	131.0	539.0
12	215.0	134.0	487.0	164.0
13	288.0	187.0	412.0	113.0

PFM

	A	C	G	T
01	0.314	0.258	0.273	0.155
02	0.268	0.241	0.385	0.106
03	0.441	0.122	0.313	0.124
04	0.044	0.821	0.126	0.009
05	0.465	0.52	0.01	0.005
06	0.0	0.0	0.999	0.001
07	0.001	0.0	0.999	0.0
08	0.993	0.003	0.002	0.002
09	0.876	0.005	0.007	0.112
10	0.151	0.043	0.804	0.002
11	0.069	0.261	0.131	0.539
12	0.215	0.134	0.487	0.164
13	0.288	0.187	0.412	0.113

PWM

	A	C	G	T
01	0.227	0.031	0.087	-0.474
02	0.069	-0.036	0.429	-0.849
03	0.565	-0.71	0.223	-0.694
04	-1.706	1.184	-0.678	-3.156
05	0.617	0.729	-3.066	-3.622
06	-4.982	-4.982	1.38	-4.525
07	-4.525	-4.982	1.38	-4.982
08	1.374	-3.975	-4.213	-4.213
09	1.249	-3.622	-3.362	-0.795
10	-0.5	-1.728	1.163	-4.213
11	-1.27	0.043	-0.64	0.765
12	-0.15	-0.618	0.663	-0.418
13	0.141	-0.288	0.497	-0.786

Standard thresholds

P-value	Threshold
0.001	4.20436
0.0005	5.377315
0.0001	7.52328