FEV.H12INVIVO.0.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FEV.H12INVIVO.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	11
Consensus	nWCCGGAAGYv
GC content	56.76%
Information content (bits; total / per base)	13.773 / 1.252
Data sources	HT-SELEX
Aligned words	9061

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)	0.612	0.616	0.455	0.468	0.542	0.558	1.345	1.427	0.0	0.041
Mouse	1 (7)	0.685	0.714	0.603	0.672	0.654	0.687	2.204	2.525	12.469	14.456

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.996	0.994	0.979	0.975	0.891	0.9
Overall, 4 experiments	best	0.998	0.996	0.996	0.993	0.992	0.988
Methyl HT-SELEX, 1 experiments	median	0.998	0.996	0.995	0.992	0.989	0.984
Methyl HT-SELEX, 1 experiments	best	0.998	0.996	0.995	0.992	0.989	0.984
Non-Methyl HT-SELEX, 3 experiments	median	0.995	0.992	0.963	0.958	0.792	0.815
Non-Methyl HT-SELEX, 3 experiments	best	0.998	0.996	0.996	0.993	0.992	0.988

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.953	0.876	0.95	0.708
batch 2	0.853	0.744	0.882	0.689

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.H12INVIVO.0.S.B.pcm
PWM	FEV.H12INVIVO.0.S.B.pwm
PFM	FEV.H12INVIVO.0.S.B.pfm
Alignment	FEV.H12INVIVO.0.S.B.words.tsv
Threshold to P-value map	FEV.H12INVIVO.0.S.B.thr
Motif in other formats
JASPAR format	FEV.H12INVIVO.0.S.B_jaspar_format.txt
MEME format	FEV.H12INVIVO.0.S.B_meme_format.meme
Transfac format	FEV.H12INVIVO.0.S.B_transfac_format.txt
Homer format	FEV.H12INVIVO.0.S.B_homer_format_0.001.txt FEV.H12INVIVO.0.S.B_homer_format_0.0005.txt FEV.H12INVIVO.0.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2519.5	1954.5	2212.5	2374.5
02	5333.0	235.0	1563.0	1930.0
03	323.0	8273.0	438.0	27.0
04	96.0	8965.0	0.0	0.0
05	0.0	0.0	9061.0	0.0
06	0.0	0.0	9061.0	0.0
07	9061.0	0.0	0.0	0.0
08	8496.0	0.0	0.0	565.0
09	1605.0	101.0	7343.0	12.0
10	147.25	1949.25	379.25	6585.25
11	2490.75	1548.75	3487.75	1533.75

PFM

	A	C	G	T
01	0.278	0.216	0.244	0.262
02	0.589	0.026	0.172	0.213
03	0.036	0.913	0.048	0.003
04	0.011	0.989	0.0	0.0
05	0.0	0.0	1.0	0.0
06	0.0	0.0	1.0	0.0
07	1.0	0.0	0.0	0.0
08	0.938	0.0	0.0	0.062
09	0.177	0.011	0.81	0.001
10	0.016	0.215	0.042	0.727
11	0.275	0.171	0.385	0.169

PWM

	A	C	G	T
01	0.106	-0.147	-0.024	0.047
02	0.856	-2.257	-0.371	-0.16
03	-1.942	1.295	-1.639	-4.35
04	-3.139	1.375	-6.903	-6.903
05	-6.903	-6.903	1.386	-6.903
06	-6.903	-6.903	1.386	-6.903
07	1.386	-6.903	-6.903	-6.903
08	1.321	-6.903	-6.903	-1.386
09	-0.344	-3.089	1.175	-5.068
10	-2.719	-0.15	-1.782	1.066
11	0.095	-0.38	0.431	-0.389

Standard thresholds

P-value	Threshold
0.001	1.854365
0.0005	3.55257
0.0001	6.980865