ARNT.H12RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ARNT.H12RSNP.0.P.B
Gene (human)	ARNT (GeneCards)
Gene synonyms (human)	BHLHE2
Gene (mouse)	Arnt
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	8
Consensus	dRCGTGMb
GC content	59.93%
Information content (bits; total / per base)	9.461 / 1.183
Data sources	ChIP-Seq
Aligned words	1007

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	10 (58)	0.839	0.917	0.751	0.82	0.773	0.855	2.323	2.868	147.447	333.347

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	11.645	9.009	0.18	0.075

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	PAS {1.2.5} (TFClass)
TF subfamily	PAS-ARNT {1.2.5.2} (TFClass)
TFClass ID	TFClass: 1.2.5.2.1
HGNC	HGNC:700
MGI	MGI:88071
EntrezGene (human)	GeneID:405 (SSTAR profile)
EntrezGene (mouse)	GeneID:11863 (SSTAR profile)
UniProt ID (human)	ARNT_HUMAN
UniProt ID (mouse)	ARNT_MOUSE
UniProt AC (human)	P27540 (TFClass)
UniProt AC (mouse)	P53762 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	10 human, 0 mouse
HT-SELEX	0
Methyl-HT-SELEX	0

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

PCM

	A	C	G	T
01	139.0	57.0	276.0	535.0
02	689.0	26.0	268.0	24.0
03	8.0	973.0	7.0	19.0
04	14.0	4.0	984.0	5.0
05	0.0	1.0	0.0	1006.0
06	0.0	1.0	1003.0	3.0
07	358.0	549.0	28.0	72.0
08	168.0	470.0	181.0	188.0

PFM

	A	C	G	T
01	0.138	0.057	0.274	0.531
02	0.684	0.026	0.266	0.024
03	0.008	0.966	0.007	0.019
04	0.014	0.004	0.977	0.005
05	0.0	0.001	0.0	0.999
06	0.0	0.001	0.996	0.003
07	0.356	0.545	0.028	0.071
08	0.167	0.467	0.18	0.187

PWM

	A	C	G	T
01	-0.588	-1.462	0.091	0.75
02	1.002	-2.213	0.062	-2.288
03	-3.26	1.347	-3.369	-2.504
04	-2.78	-3.79	1.358	-3.629
05	-4.988	-4.531	-4.988	1.38
06	-4.988	-4.531	1.377	-3.982
07	0.35	0.776	-2.143	-1.235
08	-0.401	0.621	-0.327	-0.29

Standard thresholds

P-value	Threshold
0.001	5.015525
0.0005	6.24154
0.0001	7.56582