BMAL1.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	BMAL1.H12INVITRO.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	8
Consensus	CACGTGMb
GC content	61.4%
Information content (bits; total / per base)	11.216 / 1.402
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	501

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)	0.781	0.916	0.688	0.872	0.702	0.886	2.198	3.366	102.418	182.77
Mouse	30 (186)	0.857	0.963	0.753	0.922	0.786	0.931	2.382	3.583	105.682	458.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.811	0.812	0.784	0.783	0.768	0.766
Overall, 4 experiments	best	0.999	0.999	0.998	0.998	0.997	0.996
Methyl HT-SELEX, 1 experiments	median	0.998	0.998	0.996	0.994	0.991	0.987
Methyl HT-SELEX, 1 experiments	best	0.998	0.998	0.996	0.994	0.991	0.987
Non-Methyl HT-SELEX, 3 experiments	median	0.624	0.627	0.572	0.572	0.544	0.545
Non-Methyl HT-SELEX, 3 experiments	best	0.999	0.999	0.998	0.998	0.997	0.996

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.H12INVITRO.0.PSM.A.pcm
PWM	BMAL1.H12INVITRO.0.PSM.A.pwm
PFM	BMAL1.H12INVITRO.0.PSM.A.pfm
Alignment	BMAL1.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	BMAL1.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	BMAL1.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	BMAL1.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	BMAL1.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	BMAL1.H12INVITRO.0.PSM.A_homer_format_0.001.txt BMAL1.H12INVITRO.0.PSM.A_homer_format_0.0005.txt BMAL1.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	40.0	459.0	1.0	1.0
02	477.0	3.0	16.0	5.0
03	0.0	444.0	1.0	56.0
04	0.0	1.0	497.0	3.0
05	0.0	1.0	1.0	499.0
06	0.0	0.0	501.0	0.0
07	248.0	191.0	10.0	52.0
08	64.0	205.0	130.0	102.0

PFM

	A	C	G	T
01	0.08	0.916	0.002	0.002
02	0.952	0.006	0.032	0.01
03	0.0	0.886	0.002	0.112
04	0.0	0.002	0.992	0.006
05	0.0	0.002	0.002	0.996
06	0.0	0.0	1.0	0.0
07	0.495	0.381	0.02	0.104
08	0.128	0.409	0.259	0.204

PWM

	A	C	G	T
01	-1.116	1.29	-3.905	-3.905
02	1.328	-3.327	-1.977	-2.963
03	-4.402	1.257	-3.905	-0.79
04	-4.402	-3.905	1.369	-3.327
05	-4.402	-3.905	-3.905	1.373
06	-4.402	-4.402	1.377	-4.402
07	0.677	0.418	-2.396	-0.862
08	-0.66	0.488	0.037	-0.203

Standard thresholds

P-value	Threshold
0.001	3.99783
0.0005	5.408075
0.0001	7.90461