HNF6.H12RSNP.2.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HNF6.H12RSNP.2.S.D
Gene (human)	ONECUT1 (GeneCards)
Gene synonyms (human)	HNF6, HNF6A
Gene (mouse)	Onecut1
Gene synonyms (mouse)	Hnf6, Hnf6a
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	D

Motif length	20
Consensus	nhhWATCGATYRWTdvnnnn
GC content	37.48%
Information content (bits; total / per base)	17.135 / 0.857
Data sources	HT-SELEX
Aligned words	251

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
Mouse	12 (54)	0.873	0.909	0.835	0.886	0.809	0.847	2.696	3.048	275.696	396.367

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.986	0.974	0.979	0.965	0.971	0.954
Overall, 10 experiments	best	0.998	0.996	0.997	0.995	0.996	0.994
Methyl HT-SELEX, 3 experiments	median	0.976	0.956	0.976	0.955	0.965	0.943
Methyl HT-SELEX, 3 experiments	best	0.979	0.963	0.982	0.965	0.982	0.965
Non-Methyl HT-SELEX, 7 experiments	median	0.992	0.985	0.991	0.984	0.976	0.967
Non-Methyl HT-SELEX, 7 experiments	best	0.998	0.996	0.997	0.995	0.996	0.994

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HD-CUT {3.1.9} (TFClass)
TF subfamily	ONECUT {3.1.9.1} (TFClass)
TFClass ID	TFClass: 3.1.9.1.1
HGNC	HGNC:8138
MGI	MGI:1196423
EntrezGene (human)	GeneID:3175 (SSTAR profile)
EntrezGene (mouse)	GeneID:15379 (SSTAR profile)
UniProt ID (human)	HNF6_HUMAN
UniProt ID (mouse)	HNF6_MOUSE
UniProt AC (human)	Q9UBC0 (TFClass)
UniProt AC (mouse)	O08755 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 12 mouse
HT-SELEX	7
Methyl-HT-SELEX	3

PCM	HNF6.H12RSNP.2.S.D.pcm
PWM	HNF6.H12RSNP.2.S.D.pwm
PFM	HNF6.H12RSNP.2.S.D.pfm
Alignment	HNF6.H12RSNP.2.S.D.words.tsv
Threshold to P-value map	HNF6.H12RSNP.2.S.D.thr
Motif in other formats
JASPAR format	HNF6.H12RSNP.2.S.D_jaspar_format.txt
MEME format	HNF6.H12RSNP.2.S.D_meme_format.meme
Transfac format	HNF6.H12RSNP.2.S.D_transfac_format.txt
Homer format	HNF6.H12RSNP.2.S.D_homer_format_0.001.txt HNF6.H12RSNP.2.S.D_homer_format_0.0005.txt HNF6.H12RSNP.2.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	77.25	87.25	48.25	38.25
02	134.25	49.25	27.25	40.25
03	100.0	48.0	26.0	77.0
04	92.0	0.0	10.0	149.0
05	251.0	0.0	0.0	0.0
06	0.0	0.0	0.0	251.0
07	0.0	250.0	0.0	1.0
08	0.0	0.0	251.0	0.0
09	251.0	0.0	0.0	0.0
10	0.0	0.0	0.0	251.0
11	26.0	141.0	0.0	84.0
12	56.0	8.0	175.0	12.0
13	182.0	17.0	23.0	29.0
14	5.0	21.0	10.0	215.0
15	84.0	32.0	48.0	87.0
16	81.0	58.0	82.0	30.0
17	86.0	50.0	41.0	74.0
18	38.0	55.0	55.0	103.0
19	51.25	47.25	95.25	57.25
20	58.5	51.5	74.5	66.5

PFM

	A	C	G	T
01	0.308	0.348	0.192	0.152
02	0.535	0.196	0.109	0.16
03	0.398	0.191	0.104	0.307
04	0.367	0.0	0.04	0.594
05	1.0	0.0	0.0	0.0
06	0.0	0.0	0.0	1.0
07	0.0	0.996	0.0	0.004
08	0.0	0.0	1.0	0.0
09	1.0	0.0	0.0	0.0
10	0.0	0.0	0.0	1.0
11	0.104	0.562	0.0	0.335
12	0.223	0.032	0.697	0.048
13	0.725	0.068	0.092	0.116
14	0.02	0.084	0.04	0.857
15	0.335	0.127	0.191	0.347
16	0.323	0.231	0.327	0.12
17	0.343	0.199	0.163	0.295
18	0.151	0.219	0.219	0.41
19	0.204	0.188	0.379	0.228
20	0.233	0.205	0.297	0.265

PWM

	A	C	G	T
01	0.204	0.324	-0.256	-0.481
02	0.749	-0.236	-0.806	-0.432
03	0.458	-0.261	-0.851	0.201
04	0.376	-3.838	-1.729	0.852
05	1.37	-3.838	-3.838	-3.838
06	-3.838	-3.838	-3.838	1.37
07	-3.838	1.366	-3.838	-3.293
08	-3.838	-3.838	1.37	-3.838
09	1.37	-3.838	-3.838	-3.838
10	-3.838	-3.838	-3.838	1.37
11	-0.851	0.798	-3.838	0.286
12	-0.111	-1.922	1.012	-1.567
13	1.051	-1.25	-0.967	-0.747
14	-2.308	-1.053	-1.729	1.216
15	0.286	-0.653	-0.261	0.321
16	0.25	-0.077	0.262	-0.715
17	0.309	-0.222	-0.414	0.162
18	-0.488	-0.129	-0.129	0.487
19	-0.198	-0.277	0.41	-0.09
20	-0.069	-0.193	0.168	0.057

Standard thresholds

P-value	Threshold
0.001	1.77221
0.0005	3.14346
0.0001	5.98796