BMAL1.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	BMAL1.H12INVIVO.0.PSM.A
Gene (human)	ARNTL (GeneCards)
Gene synonyms (human)	BHLHE5, BMAL1, MOP3, PASD3
Gene (mouse)	Arntl
Gene synonyms (mouse)	Bmal1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	dbMCACGTGM
GC content	60.82%
Information content (bits; total / per base)	10.923 / 1.092
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	989

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	6 (36)	0.786	0.92	0.702	0.868	0.718	0.898	2.328	3.588	85.858	179.328
Mouse	30 (186)	0.864	0.96	0.773	0.925	0.809	0.934	2.646	3.729	105.354	464.18

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.801	0.779	0.775	0.762	0.762	0.752
Overall, 4 experiments	best	0.992	0.985	0.992	0.985	0.992	0.984
Methyl HT-SELEX, 1 experiments	median	0.987	0.975	0.986	0.973	0.984	0.97
Methyl HT-SELEX, 1 experiments	best	0.987	0.975	0.986	0.973	0.984	0.97
Non-Methyl HT-SELEX, 3 experiments	median	0.615	0.583	0.564	0.552	0.54	0.534
Non-Methyl HT-SELEX, 3 experiments	best	0.992	0.985	0.992	0.985	0.992	0.984

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: 1.2.5.2.3
HGNC	HGNC:701
MGI	MGI:1096381
EntrezGene (human)	GeneID:406 (SSTAR profile)
EntrezGene (mouse)	GeneID:11865 (SSTAR profile)
UniProt ID (human)	BMAL1_HUMAN
UniProt ID (mouse)	BMAL1_MOUSE
UniProt AC (human)	O00327 (TFClass)
UniProt AC (mouse)	Q9WTL8 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	6 human, 30 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	BMAL1.H12INVIVO.0.PSM.A.pcm
PWM	BMAL1.H12INVIVO.0.PSM.A.pwm
PFM	BMAL1.H12INVIVO.0.PSM.A.pfm
Alignment	BMAL1.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	BMAL1.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	BMAL1.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	BMAL1.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	BMAL1.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	BMAL1.H12INVIVO.0.PSM.A_homer_format_0.001.txt BMAL1.H12INVIVO.0.PSM.A_homer_format_0.0005.txt BMAL1.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	264.0	157.0	386.0	182.0
02	160.0	186.0	452.0	191.0
03	335.0	480.0	170.0	4.0
04	62.0	918.0	4.0	5.0
05	911.0	8.0	40.0	30.0
06	4.0	766.0	14.0	205.0
07	7.0	7.0	973.0	2.0
08	20.0	15.0	5.0	949.0
09	0.0	0.0	985.0	4.0
10	426.0	427.0	22.0	114.0

PFM

	A	C	G	T
01	0.267	0.159	0.39	0.184
02	0.162	0.188	0.457	0.193
03	0.339	0.485	0.172	0.004
04	0.063	0.928	0.004	0.005
05	0.921	0.008	0.04	0.03
06	0.004	0.775	0.014	0.207
07	0.007	0.007	0.984	0.002
08	0.02	0.015	0.005	0.96
09	0.0	0.0	0.996	0.004
10	0.431	0.432	0.022	0.115

PWM

	A	C	G	T
01	0.065	-0.45	0.443	-0.304
02	-0.431	-0.282	0.6	-0.256
03	0.302	0.66	-0.371	-3.773
04	-1.363	1.307	-3.773	-3.612
05	1.299	-3.243	-1.786	-2.06
06	-3.773	1.126	-2.762	-0.186
07	-3.351	-3.351	1.365	-4.203
08	-2.439	-2.7	-3.612	1.34
09	-4.973	-4.973	1.377	-3.773
10	0.541	0.543	-2.351	-0.766

Standard thresholds

P-value	Threshold
0.001	4.378565
0.0005	5.296525
0.0001	7.7682