HNF1A.H12RSNP.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HNF1A.H12RSNP.0.PS.A
Gene (human)	HNF1A (GeneCards)
Gene synonyms (human)	TCF1
Gene (mouse)	Hnf1a
Gene synonyms (mouse)	Hnf-1, Hnf-1a, Tcf1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	15
Consensus	dRTWAATGWTTRAYh
GC content	26.85%
Information content (bits; total / per base)	15.49 / 1.033
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1000

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	8 (51)	0.765	0.981	0.715	0.963	0.867	0.983	4.646	5.994	72.357	675.046

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	1.0	1.0	1.0	1.0	0.976	0.98
Non-Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	1.0	1.0	1.0

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.754	0.59	0.826	0.621

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	POU {3.1.10} (TFClass)
TF subfamily	HNF1-like {3.1.10.7} (TFClass)
TFClass ID	TFClass: 3.1.10.7.1
HGNC	HGNC:11621
MGI	MGI:98504
EntrezGene (human)	GeneID:6927 (SSTAR profile)
EntrezGene (mouse)	GeneID:21405 (SSTAR profile)
UniProt ID (human)	HNF1A_HUMAN
UniProt ID (mouse)	HNF1A_MOUSE
UniProt AC (human)	P20823 (TFClass)
UniProt AC (mouse)	P22361 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	8 human, 0 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	HNF1A.H12RSNP.0.PS.A.pcm
PWM	HNF1A.H12RSNP.0.PS.A.pwm
PFM	HNF1A.H12RSNP.0.PS.A.pfm
Alignment	HNF1A.H12RSNP.0.PS.A.words.tsv
Threshold to P-value map	HNF1A.H12RSNP.0.PS.A.thr
Motif in other formats
JASPAR format	HNF1A.H12RSNP.0.PS.A_jaspar_format.txt
MEME format	HNF1A.H12RSNP.0.PS.A_meme_format.meme
Transfac format	HNF1A.H12RSNP.0.PS.A_transfac_format.txt
Homer format	HNF1A.H12RSNP.0.PS.A_homer_format_0.001.txt HNF1A.H12RSNP.0.PS.A_homer_format_0.0005.txt HNF1A.H12RSNP.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	322.0	57.0	415.0	206.0
02	108.0	35.0	778.0	79.0
03	27.0	81.0	70.0	822.0
04	105.0	74.0	41.0	780.0
05	971.0	0.0	21.0	8.0
06	927.0	49.0	3.0	21.0
07	117.0	9.0	0.0	874.0
08	333.0	0.0	667.0	0.0
09	675.0	12.0	55.0	258.0
10	62.0	7.0	85.0	846.0
11	15.0	46.0	4.0	935.0
12	768.0	33.0	107.0	92.0
13	808.0	81.0	65.0	46.0
14	78.0	752.0	33.0	137.0
15	227.0	393.0	55.0	325.0

PFM

	A	C	G	T
01	0.322	0.057	0.415	0.206
02	0.108	0.035	0.778	0.079
03	0.027	0.081	0.07	0.822
04	0.105	0.074	0.041	0.78
05	0.971	0.0	0.021	0.008
06	0.927	0.049	0.003	0.021
07	0.117	0.009	0.0	0.874
08	0.333	0.0	0.667	0.0
09	0.675	0.012	0.055	0.258
10	0.062	0.007	0.085	0.846
11	0.015	0.046	0.004	0.935
12	0.768	0.033	0.107	0.092
13	0.808	0.081	0.065	0.046
14	0.078	0.752	0.033	0.137
15	0.227	0.393	0.055	0.325

PWM

	A	C	G	T
01	0.252	-1.455	0.504	-0.192
02	-0.83	-1.925	1.131	-1.137
03	-2.171	-1.113	-1.255	1.185
04	-0.858	-1.201	-1.774	1.133
05	1.352	-4.982	-2.405	-3.253
06	1.305	-1.602	-3.975	-2.405
07	-0.752	-3.156	-4.982	1.247
08	0.285	-4.982	0.977	-4.982
09	0.989	-2.909	-1.49	0.031
10	-1.374	-3.362	-1.066	1.214
11	-2.711	-1.663	-3.783	1.314
12	1.118	-1.981	-0.84	-0.988
13	1.168	-1.113	-1.328	-1.663
14	-1.15	1.097	-1.981	-0.596
15	-0.096	0.45	-1.49	0.261

Standard thresholds

P-value	Threshold
0.001	2.96646
0.0005	4.10716
0.0001	6.48741