BHE40.H12CORE.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	BHE40.H12CORE.0.PSM.A
Gene (human)	BHLHE40 (GeneCards)
Gene synonyms (human)	BHLHB2, DEC1, SHARP2, STRA13
Gene (mouse)	Bhlhe40
Gene synonyms (mouse)	Bhlhb2, Clast5, Dec1, Stra13
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	bGCACGTGhb
GC content	63.49%
Information content (bits; total / per base)	11.992 / 1.199
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1001

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	5 (35)	0.928	0.953	0.877	0.912	0.872	0.924	3.222	3.844	411.194	566.796
Mouse	7 (43)	0.928	0.98	0.875	0.957	0.884	0.961	3.246	4.397	338.824	575.155

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.998	0.995	0.994	0.992	0.878	0.885
Overall, 10 experiments	best	1.0	0.999	0.999	0.999	0.999	0.999
Methyl HT-SELEX, 2 experiments	median	0.992	0.984	0.957	0.947	0.827	0.831
Methyl HT-SELEX, 2 experiments	best	0.996	0.993	0.964	0.959	0.835	0.841
Non-Methyl HT-SELEX, 8 experiments	median	0.998	0.997	0.997	0.995	0.937	0.943
Non-Methyl HT-SELEX, 8 experiments	best	1.0	0.999	0.999	0.999	0.999	0.999

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	15.126	24.647	0.341	0.283

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	Hairy-related {1.2.4} (TFClass)
TF subfamily	HAIRY {1.2.4.1} (TFClass)
TFClass ID	TFClass: 1.2.4.1.12
HGNC	HGNC:1046
MGI	MGI:1097714
EntrezGene (human)	GeneID:8553 (SSTAR profile)
EntrezGene (mouse)	GeneID:20893 (SSTAR profile)
UniProt ID (human)	BHE40_HUMAN
UniProt ID (mouse)	BHE40_MOUSE
UniProt AC (human)	O14503 (TFClass)
UniProt AC (mouse)	O35185 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	5 human, 7 mouse
HT-SELEX	8
Methyl-HT-SELEX	2

PCM	BHE40.H12CORE.0.PSM.A.pcm
PWM	BHE40.H12CORE.0.PSM.A.pwm
PFM	BHE40.H12CORE.0.PSM.A.pfm
Alignment	BHE40.H12CORE.0.PSM.A.words.tsv
Threshold to P-value map	BHE40.H12CORE.0.PSM.A.thr
Motif in other formats
JASPAR format	BHE40.H12CORE.0.PSM.A_jaspar_format.txt
MEME format	BHE40.H12CORE.0.PSM.A_meme_format.meme
Transfac format	BHE40.H12CORE.0.PSM.A_transfac_format.txt
Homer format	BHE40.H12CORE.0.PSM.A_homer_format_0.001.txt BHE40.H12CORE.0.PSM.A_homer_format_0.0005.txt BHE40.H12CORE.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	151.0	155.0	467.0	228.0
02	1.0	7.0	688.0	305.0
03	6.0	994.0	0.0	1.0
04	992.0	3.0	3.0	3.0
05	1.0	986.0	2.0	12.0
06	16.0	2.0	983.0	0.0
07	50.0	66.0	55.0	830.0
08	0.0	2.0	917.0	82.0
09	503.0	232.0	49.0	217.0
10	64.0	353.0	391.0	193.0

PFM

	A	C	G	T
01	0.151	0.155	0.467	0.228
02	0.001	0.007	0.687	0.305
03	0.006	0.993	0.0	0.001
04	0.991	0.003	0.003	0.003
05	0.001	0.985	0.002	0.012
06	0.016	0.002	0.982	0.0
07	0.05	0.066	0.055	0.829
08	0.0	0.002	0.916	0.082
09	0.502	0.232	0.049	0.217
10	0.064	0.353	0.391	0.193

PWM

	A	C	G	T
01	-0.501	-0.475	0.621	-0.092
02	-4.526	-3.363	1.007	0.197
03	-3.485	1.374	-4.983	-4.526
04	1.372	-3.976	-3.976	-3.976
05	-4.526	1.366	-4.214	-2.91
06	-2.654	-4.214	1.363	-4.983
07	-1.583	-1.314	-1.491	1.194
08	-4.983	-4.214	1.294	-1.102
09	0.695	-0.075	-1.603	-0.142
10	-1.344	0.342	0.444	-0.258

Standard thresholds

P-value	Threshold
0.001	3.84526
0.0005	5.04259
0.0001	7.4024