HES5.H13RSNP.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HES5.H13RSNP.0.SM.B
Gene (human)	HES5 (GeneCards)
Gene synonyms (human)	BHLHB38
Gene (mouse)	Hes5
Gene synonyms (mouse)	Hes-5
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	nRRCACKYSCCn
GC content	64.19%
Information content (bits; total / per base)	10.925 / 0.91
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	3402
Previous names	HES5.H12RSNP.0.SM.B

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.786	0.798	0.642	0.662	0.577	0.596
Overall, 5 experiments	best	1.0	0.999	0.999	0.999	0.995	0.993
Methyl HT-SELEX, 1 experiments	median	0.982	0.978	0.884	0.873	0.774	0.769
Methyl HT-SELEX, 1 experiments	best	0.982	0.978	0.884	0.873	0.774	0.769
Non-Methyl HT-SELEX, 4 experiments	median	0.746	0.76	0.621	0.639	0.566	0.583
Non-Methyl HT-SELEX, 4 experiments	best	1.0	0.999	0.999	0.999	0.995	0.993

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.663	0.184	0.336	0.077

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: 1.2.4.1.5
HGNC	HGNC:19764
MGI	MGI:104876
EntrezGene (human)	GeneID:388585 (SSTAR profile)
EntrezGene (mouse)	GeneID:15208 (SSTAR profile)
UniProt ID (human)	HES5_HUMAN
UniProt ID (mouse)	HES5_MOUSE
UniProt AC (human)	Q5TA89 (TFClass)
UniProt AC (mouse)	P70120 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	4
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	HES5.H13RSNP.0.SM.B.pcm
PWM	HES5.H13RSNP.0.SM.B.pwm
PFM	HES5.H13RSNP.0.SM.B.pfm
Threshold to P-value map	HES5.H13RSNP.0.SM.B.thr
Motif in other formats
JASPAR format	HES5.H13RSNP.0.SM.B_jaspar_format.txt
MEME format	HES5.H13RSNP.0.SM.B_meme_format.meme
Transfac format	HES5.H13RSNP.0.SM.B_transfac_format.txt
Homer format	HES5.H13RSNP.0.SM.B_homer_format_0.001.txt HES5.H13RSNP.0.SM.B_homer_format_0.0005.txt HES5.H13RSNP.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	676.0	1017.0	714.0	995.0
02	548.5	539.5	2144.5	169.5
03	1782.0	690.0	928.0	2.0
04	0.0	3209.0	0.0	193.0
05	3240.0	0.0	0.0	162.0
06	0.0	3345.0	0.0	57.0
07	45.0	364.0	2440.0	553.0
08	125.0	701.0	23.0	2553.0
09	223.0	473.0	2234.0	472.0
10	166.0	2670.0	28.0	538.0
11	183.5	2864.5	78.5	275.5
12	907.25	1132.25	610.25	752.25

PFM

	A	C	G	T
01	0.199	0.299	0.21	0.292
02	0.161	0.159	0.63	0.05
03	0.524	0.203	0.273	0.001
04	0.0	0.943	0.0	0.057
05	0.952	0.0	0.0	0.048
06	0.0	0.983	0.0	0.017
07	0.013	0.107	0.717	0.163
08	0.037	0.206	0.007	0.75
09	0.066	0.139	0.657	0.139
10	0.049	0.785	0.008	0.158
11	0.054	0.842	0.023	0.081
12	0.267	0.333	0.179	0.221

PWM

	A	C	G	T
01	-0.229	0.178	-0.174	0.157
02	-0.437	-0.454	0.923	-1.603
03	0.738	-0.209	0.087	-5.354
04	-6.039	1.326	-6.039	-1.475
05	1.336	-6.039	-6.039	-1.648
06	-6.039	1.368	-6.039	-2.67
07	-2.897	-0.845	1.052	-0.429
08	-1.904	-0.193	-3.528	1.098
09	-1.332	-0.585	0.964	-0.587
10	-1.624	1.142	-3.346	-0.457
11	-1.525	1.213	-2.36	-1.122
12	0.064	0.286	-0.331	-0.122

Standard thresholds

P-value	Threshold
0.001	4.54201
0.0005	5.500075
0.0001	7.357115