FEV.H12RSNP.0.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FEV.H12RSNP.0.S.B
Gene (human)	FEV (GeneCards)
Gene synonyms (human)	PET1
Gene (mouse)	Fev
Gene synonyms (mouse)	Pet1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	13
Consensus	nhWCCGGAAGTdn
GC content	53.36%
Information content (bits; total / per base)	14.727 / 1.133
Data sources	HT-SELEX
Aligned words	2406

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 (4)	0.609	0.613	0.451	0.465	0.53	0.544	1.288	1.363	0.0	0.027
Mouse	1 (7)	0.682	0.702	0.593	0.656	0.641	0.668	2.09	2.36	10.699	13.602

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.995	0.992	0.976	0.971	0.888	0.896
Overall, 4 experiments	best	0.997	0.995	0.995	0.992	0.992	0.987
Methyl HT-SELEX, 1 experiments	median	0.997	0.995	0.995	0.991	0.989	0.984
Methyl HT-SELEX, 1 experiments	best	0.997	0.995	0.995	0.991	0.989	0.984
Non-Methyl HT-SELEX, 3 experiments	median	0.993	0.989	0.958	0.951	0.787	0.809
Non-Methyl HT-SELEX, 3 experiments	best	0.997	0.995	0.995	0.992	0.992	0.987

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.965	0.904	0.954	0.713
batch 2	0.849	0.741	0.875	0.693

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	ETS-like {3.5.2.1} (TFClass)
TFClass ID	TFClass: 3.5.2.1.8
HGNC	HGNC:18562
MGI	MGI:2449712
EntrezGene (human)	GeneID:54738 (SSTAR profile)
EntrezGene (mouse)	GeneID:260298 (SSTAR profile)
UniProt ID (human)	FEV_HUMAN
UniProt ID (mouse)	FEV_MOUSE
UniProt AC (human)	Q99581 (TFClass)
UniProt AC (mouse)	Q8QZW2 (TFClass)
GRECO-DB-TF	yes

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

PCM	FEV.H12RSNP.0.S.B.pcm
PWM	FEV.H12RSNP.0.S.B.pwm
PFM	FEV.H12RSNP.0.S.B.pfm
Alignment	FEV.H12RSNP.0.S.B.words.tsv
Threshold to P-value map	FEV.H12RSNP.0.S.B.thr
Motif in other formats
JASPAR format	FEV.H12RSNP.0.S.B_jaspar_format.txt
MEME format	FEV.H12RSNP.0.S.B_meme_format.meme
Transfac format	FEV.H12RSNP.0.S.B_transfac_format.txt
Homer format	FEV.H12RSNP.0.S.B_homer_format_0.001.txt FEV.H12RSNP.0.S.B_homer_format_0.0005.txt FEV.H12RSNP.0.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	597.0	637.0	563.0	609.0
02	698.75	412.75	369.75	924.75
03	1215.0	32.0	159.0	1000.0
04	47.0	2272.0	74.0	13.0
05	14.0	2391.0	0.0	1.0
06	0.0	0.0	2406.0	0.0
07	0.0	0.0	2406.0	0.0
08	2406.0	0.0	0.0	0.0
09	2288.0	1.0	0.0	117.0
10	295.0	8.0	2099.0	4.0
11	36.0	345.0	33.0	1992.0
12	785.0	356.0	836.0	429.0
13	657.5	676.5	613.5	458.5

PFM

	A	C	G	T
01	0.248	0.265	0.234	0.253
02	0.29	0.172	0.154	0.384
03	0.505	0.013	0.066	0.416
04	0.02	0.944	0.031	0.005
05	0.006	0.994	0.0	0.0
06	0.0	0.0	1.0	0.0
07	0.0	0.0	1.0	0.0
08	1.0	0.0	0.0	0.0
09	0.951	0.0	0.0	0.049
10	0.123	0.003	0.872	0.002
11	0.015	0.143	0.014	0.828
12	0.326	0.148	0.347	0.178
13	0.273	0.281	0.255	0.191

PWM

	A	C	G	T
01	-0.007	0.057	-0.066	0.012
02	0.149	-0.375	-0.485	0.429
03	0.701	-2.878	-1.322	0.507
04	-2.512	1.327	-2.073	-3.698
05	-3.633	1.378	-5.737	-5.322
06	-5.737	-5.737	1.384	-5.737
07	-5.737	-5.737	1.384	-5.737
08	1.384	-5.737	-5.737	-5.737
09	1.334	-5.322	-5.737	-1.624
10	-0.709	-4.105	1.247	-4.62
11	-2.766	-0.553	-2.849	1.195
12	0.266	-0.522	0.328	-0.337
13	0.089	0.117	0.02	-0.27

Standard thresholds

P-value	Threshold
0.001	1.62406
0.0005	3.19227
0.0001	6.378505