HNF1B.H12RSNP.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HNF1B.H12RSNP.0.PS.A
Gene (human)	HNF1B (GeneCards)
Gene synonyms (human)	TCF2
Gene (mouse)	Hnf1b
Gene synonyms (mouse)	Hnf-1b, Tcf2
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	15
Consensus	dRTWAATGAKTRAYh
GC content	25.54%
Information content (bits; total / per base)	14.699 / 0.98
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1004

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	4 (24)	0.946	0.975	0.915	0.951	0.968	0.985	5.684	6.115	262.45	477.18
Mouse	4 (27)	0.974	0.979	0.948	0.963	0.982	0.985	5.835	6.285	586.42	765.377

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	1.0	1.0	0.997	0.997	0.848	0.882
Non-Methyl HT-SELEX, 2 experiments	best	1	1	1.0	1.0	0.92	0.938

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.949	0.443	0.939	0.554
batch 2	0.923	0.6	0.91	0.63

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: 3.1.10.7.2
HGNC	HGNC:11630
MGI	MGI:98505
EntrezGene (human)	GeneID:6928 (SSTAR profile)
EntrezGene (mouse)	GeneID:21410 (SSTAR profile)
UniProt ID (human)	HNF1B_HUMAN
UniProt ID (mouse)	HNF1B_MOUSE
UniProt AC (human)	P35680 (TFClass)
UniProt AC (mouse)	P27889 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	4 human, 4 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	HNF1B.H12RSNP.0.PS.A.pcm
PWM	HNF1B.H12RSNP.0.PS.A.pwm
PFM	HNF1B.H12RSNP.0.PS.A.pfm
Alignment	HNF1B.H12RSNP.0.PS.A.words.tsv
Threshold to P-value map	HNF1B.H12RSNP.0.PS.A.thr
Motif in other formats
JASPAR format	HNF1B.H12RSNP.0.PS.A_jaspar_format.txt
MEME format	HNF1B.H12RSNP.0.PS.A_meme_format.meme
Transfac format	HNF1B.H12RSNP.0.PS.A_transfac_format.txt
Homer format	HNF1B.H12RSNP.0.PS.A_homer_format_0.001.txt HNF1B.H12RSNP.0.PS.A_homer_format_0.0005.txt HNF1B.H12RSNP.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	406.0	59.0	327.0	212.0
02	267.0	44.0	630.0	63.0
03	33.0	68.0	58.0	845.0
04	173.0	78.0	41.0	712.0
05	980.0	2.0	16.0	6.0
06	867.0	125.0	2.0	10.0
07	42.0	9.0	2.0	951.0
08	414.0	0.0	590.0	0.0
09	847.0	7.0	52.0	98.0
10	76.0	11.0	160.0	757.0
11	8.0	26.0	3.0	967.0
12	647.0	59.0	178.0	120.0
13	846.0	67.0	66.0	25.0
14	70.0	588.0	85.0	261.0
15	209.0	390.0	104.0	301.0

PFM

	A	C	G	T
01	0.404	0.059	0.326	0.211
02	0.266	0.044	0.627	0.063
03	0.033	0.068	0.058	0.842
04	0.172	0.078	0.041	0.709
05	0.976	0.002	0.016	0.006
06	0.864	0.125	0.002	0.01
07	0.042	0.009	0.002	0.947
08	0.412	0.0	0.588	0.0
09	0.844	0.007	0.052	0.098
10	0.076	0.011	0.159	0.754
11	0.008	0.026	0.003	0.963
12	0.644	0.059	0.177	0.12
13	0.843	0.067	0.066	0.025
14	0.07	0.586	0.085	0.26
15	0.208	0.388	0.104	0.3

PWM

	A	C	G	T
01	0.478	-1.426	0.263	-0.168
02	0.061	-1.71	0.916	-1.362
03	-1.985	-1.288	-1.443	1.209
04	-0.369	-1.154	-1.777	1.038
05	1.357	-4.216	-2.657	-3.487
06	1.235	-0.69	-4.216	-3.07
07	-1.754	-3.159	-4.216	1.327
08	0.498	-4.985	0.851	-4.985
09	1.211	-3.366	-1.548	-0.93
10	-1.179	-2.989	-0.446	1.099
11	-3.257	-2.21	-3.979	1.344
12	0.943	-1.426	-0.341	-0.731
13	1.21	-1.302	-1.317	-2.247
14	-1.259	0.847	-1.07	0.039
15	-0.182	0.438	-0.871	0.181

Standard thresholds

P-value	Threshold
0.001	3.18896
0.0005	4.32371
0.0001	6.67911