HESX1.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HESX1.H12INVIVO.0.SM.D
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	D

Motif length	11
Consensus	dnbAATTAvbn
GC content	25.21%
Information content (bits; total / per base)	10.524 / 0.957
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9427

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.762	0.741	0.625	0.632	0.553	0.576
Overall, 4 experiments	best	0.85	0.84	0.655	0.682	0.567	0.599
Methyl HT-SELEX, 1 experiments	median	0.744	0.712	0.63	0.624	0.567	0.575
Methyl HT-SELEX, 1 experiments	best	0.744	0.712	0.63	0.624	0.567	0.575
Non-Methyl HT-SELEX, 3 experiments	median	0.779	0.769	0.62	0.641	0.545	0.576
Non-Methyl HT-SELEX, 3 experiments	best	0.85	0.84	0.655	0.682	0.561	0.599

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.916	0.658	0.853	0.502
batch 2	0.573	0.132	0.542	0.446

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.H12INVIVO.0.SM.D.pcm
PWM	HESX1.H12INVIVO.0.SM.D.pwm
PFM	HESX1.H12INVIVO.0.SM.D.pfm
Alignment	HESX1.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	HESX1.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	HESX1.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	HESX1.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	HESX1.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	HESX1.H12INVIVO.0.SM.D_homer_format_0.001.txt HESX1.H12INVIVO.0.SM.D_homer_format_0.0005.txt HESX1.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3041.25	1212.25	1862.25	3311.25
02	1823.75	2101.75	1817.75	3683.75
03	773.0	3339.0	1000.0	4315.0
04	9351.0	18.0	57.0	1.0
05	9426.0	1.0	0.0	0.0
06	0.0	0.0	0.0	9427.0
07	0.0	0.0	0.0	9427.0
08	9126.0	0.0	301.0	0.0
09	3797.0	1362.0	2964.0	1304.0
10	1586.25	4314.25	1597.25	1929.25
11	2994.75	2307.75	1883.75	2240.75

PFM

	A	C	G	T
01	0.323	0.129	0.198	0.351
02	0.193	0.223	0.193	0.391
03	0.082	0.354	0.106	0.458
04	0.992	0.002	0.006	0.0
05	1.0	0.0	0.0	0.0
06	0.0	0.0	0.0	1.0
07	0.0	0.0	0.0	1.0
08	0.968	0.0	0.032	0.0
09	0.403	0.144	0.314	0.138
10	0.168	0.458	0.169	0.205
11	0.318	0.245	0.2	0.238

PWM

	A	C	G	T
01	0.255	-0.664	-0.235	0.34
02	-0.256	-0.114	-0.259	0.446
03	-1.113	0.348	-0.856	0.604
04	1.377	-4.756	-3.684	-6.576
05	1.385	-6.576	-6.938	-6.938
06	-6.938	-6.938	-6.938	1.386
07	-6.938	-6.938	-6.938	1.386
08	1.353	-6.938	-2.051	-6.938
09	0.477	-0.548	0.229	-0.591
10	-0.395	0.604	-0.389	-0.2
11	0.239	-0.021	-0.224	-0.05

Standard thresholds

P-value	Threshold
0.001	4.52887
0.0005	6.258185
0.0001	7.72788