HESX1.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HESX1.H12INVITRO.0.SM.B
Gene (human)	HESX1 (GeneCards)
Gene synonyms (human)	HANF
Gene (mouse)	Hesx1
Gene synonyms (mouse)	Hes-1, Rpx
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	11
Consensus	nhYAATTAvbn
GC content	32.61%
Information content (bits; total / per base)	9.303 / 0.846
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	6796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.774	0.749	0.642	0.643	0.572	0.585
Overall, 4 experiments	best	0.847	0.83	0.666	0.683	0.578	0.605
Methyl HT-SELEX, 1 experiments	median	0.753	0.72	0.64	0.632	0.578	0.582
Methyl HT-SELEX, 1 experiments	best	0.753	0.72	0.64	0.632	0.578	0.582
Non-Methyl HT-SELEX, 3 experiments	median	0.796	0.777	0.643	0.654	0.567	0.589
Non-Methyl HT-SELEX, 3 experiments	best	0.847	0.83	0.666	0.683	0.577	0.605

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.874	0.431	0.802	0.47
batch 2	0.522	0.064	0.359	0.222

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	Paired-related HD {3.1.3} (TFClass)
TF subfamily	HESX {3.1.3.10} (TFClass)
TFClass ID	TFClass: 3.1.3.10.1
HGNC	HGNC:4877
MGI	MGI:96071
EntrezGene (human)	GeneID:8820 (SSTAR profile)
EntrezGene (mouse)	GeneID:15209 (SSTAR profile)
UniProt ID (human)	HESX1_HUMAN
UniProt ID (mouse)	HESX1_MOUSE
UniProt AC (human)	Q9UBX0 (TFClass)
UniProt AC (mouse)	Q61658 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	HESX1.H12INVITRO.0.SM.B.pcm
PWM	HESX1.H12INVITRO.0.SM.B.pwm
PFM	HESX1.H12INVITRO.0.SM.B.pfm
Alignment	HESX1.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	HESX1.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	HESX1.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	HESX1.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	HESX1.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	HESX1.H12INVITRO.0.SM.B_homer_format_0.001.txt HESX1.H12INVITRO.0.SM.B_homer_format_0.0005.txt HESX1.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2057.25	2036.25	1267.25	1435.25
02	1311.75	2948.75	962.75	1572.75
03	339.0	3089.0	90.0	3278.0
04	5566.0	1100.0	125.0	5.0
05	5995.0	773.0	28.0	0.0
06	0.0	270.0	0.0	6526.0
07	0.0	0.0	0.0	6796.0
08	6268.0	499.0	29.0	0.0
09	2680.0	1871.0	1469.0	776.0
10	443.25	3362.25	999.25	1991.25
11	1504.5	1561.5	1895.5	1834.5

PFM

	A	C	G	T
01	0.303	0.3	0.186	0.211
02	0.193	0.434	0.142	0.231
03	0.05	0.455	0.013	0.482
04	0.819	0.162	0.018	0.001
05	0.882	0.114	0.004	0.0
06	0.0	0.04	0.0	0.96
07	0.0	0.0	0.0	1.0
08	0.922	0.073	0.004	0.0
09	0.394	0.275	0.216	0.114
10	0.065	0.495	0.147	0.293
11	0.221	0.23	0.279	0.27

PWM

	A	C	G	T
01	0.191	0.181	-0.293	-0.168
02	-0.258	0.551	-0.567	-0.077
03	-1.607	0.597	-2.915	0.657
04	1.186	-0.434	-2.593	-5.464
05	1.26	-0.786	-4.031	-6.648
06	-6.648	-1.833	-6.648	1.345
07	-6.648	-6.648	-6.648	1.385
08	1.304	-1.222	-3.998	-6.648
09	0.455	0.096	-0.145	-0.782
10	-1.34	0.682	-0.53	0.159
11	-0.121	-0.084	0.109	0.077

Standard thresholds

P-value	Threshold
0.001	5.15472
0.0005	5.999435
0.0001	7.52276