BHE40.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	BHE40.H12INVITRO.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	9
Consensus	vKCACGYGh
GC content	63.74%
Information content (bits; total / per base)	10.144 / 1.127
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	931

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)	0.917	0.946	0.861	0.9	0.878	0.921	3.229	3.732	404.721	564.244
Mouse	7 (43)	0.923	0.974	0.858	0.949	0.868	0.952	3.156	4.216	320.137	547.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.998	0.996	0.994	0.992	0.875	0.89
Overall, 10 experiments	best	1.0	0.999	1.0	0.999	0.999	0.999
Methyl HT-SELEX, 2 experiments	median	0.992	0.984	0.959	0.949	0.823	0.829
Methyl HT-SELEX, 2 experiments	best	0.996	0.993	0.964	0.959	0.83	0.838
Non-Methyl HT-SELEX, 8 experiments	median	0.998	0.997	0.998	0.996	0.944	0.949
Non-Methyl HT-SELEX, 8 experiments	best	1.0	0.999	1.0	0.999	0.999	0.999

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	14.001	24.43	0.334	0.279

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.H12INVITRO.0.PSM.A.pcm
PWM	BHE40.H12INVITRO.0.PSM.A.pwm
PFM	BHE40.H12INVITRO.0.PSM.A.pfm
Alignment	BHE40.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	BHE40.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	BHE40.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	BHE40.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	BHE40.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	BHE40.H12INVITRO.0.PSM.A_homer_format_0.001.txt BHE40.H12INVITRO.0.PSM.A_homer_format_0.0005.txt BHE40.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	146.0	160.0	512.0	113.0
02	7.0	12.0	423.0	489.0
03	5.0	910.0	15.0	1.0
04	921.0	6.0	2.0	2.0
05	7.0	855.0	52.0	17.0
06	48.0	28.0	846.0	9.0
07	71.0	95.0	78.0	687.0
08	3.0	11.0	830.0	87.0
09	242.0	394.0	112.0	183.0

PFM

	A	C	G	T
01	0.157	0.172	0.55	0.121
02	0.008	0.013	0.454	0.525
03	0.005	0.977	0.016	0.001
04	0.989	0.006	0.002	0.002
05	0.008	0.918	0.056	0.018
06	0.052	0.03	0.909	0.01
07	0.076	0.102	0.084	0.738
08	0.003	0.012	0.892	0.093
09	0.26	0.423	0.12	0.197

PWM

	A	C	G	T
01	-0.462	-0.371	0.784	-0.715
02	-3.293	-2.839	0.594	0.739
03	-3.554	1.358	-2.641	-4.461
04	1.37	-3.415	-4.147	-4.147
05	-3.293	1.296	-1.474	-2.528
06	-1.551	-2.066	1.285	-3.086
07	-1.171	-0.886	-1.079	1.078
08	-3.908	-2.915	1.266	-0.972
09	0.039	0.523	-0.724	-0.238

Standard thresholds

P-value	Threshold
0.001	4.729595
0.0005	5.64863
0.0001	7.50668