HNF1A.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HNF1A.H12INVIVO.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	dRTWAATGATTWRYh
GC content	26.27%
Information content (bits; total / per base)	15.645 / 1.043
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)	0.767	0.983	0.707	0.966	0.869	0.986	4.624	6.063	74.036	682.018

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	0.76	0.583	0.813	0.608

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.H12INVIVO.0.PS.A.pcm
PWM	HNF1A.H12INVIVO.0.PS.A.pwm
PFM	HNF1A.H12INVIVO.0.PS.A.pfm
Alignment	HNF1A.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	HNF1A.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	HNF1A.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	HNF1A.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	HNF1A.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	HNF1A.H12INVIVO.0.PS.A_homer_format_0.001.txt HNF1A.H12INVIVO.0.PS.A_homer_format_0.0005.txt HNF1A.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	342.0	64.0	387.0	207.0
02	180.0	35.0	728.0	57.0
03	23.0	91.0	66.0	820.0
04	104.0	70.0	46.0	780.0
05	980.0	0.0	15.0	5.0
06	934.0	49.0	2.0	15.0
07	51.0	11.0	1.0	937.0
08	339.0	0.0	661.0	0.0
09	784.0	17.0	48.0	151.0
10	41.0	14.0	122.0	823.0
11	7.0	39.0	0.0	954.0
12	750.0	47.0	91.0	112.0
13	795.0	74.0	90.0	41.0
14	71.0	702.0	42.0	185.0
15	228.0	362.0	66.0	344.0

PFM

	A	C	G	T
01	0.342	0.064	0.387	0.207
02	0.18	0.035	0.728	0.057
03	0.023	0.091	0.066	0.82
04	0.104	0.07	0.046	0.78
05	0.98	0.0	0.015	0.005
06	0.934	0.049	0.002	0.015
07	0.051	0.011	0.001	0.937
08	0.339	0.0	0.661	0.0
09	0.784	0.017	0.048	0.151
10	0.041	0.014	0.122	0.823
11	0.007	0.039	0.0	0.954
12	0.75	0.047	0.091	0.112
13	0.795	0.074	0.09	0.041
14	0.071	0.702	0.042	0.185
15	0.228	0.362	0.066	0.344

PWM

	A	C	G	T
01	0.312	-1.343	0.435	-0.187
02	-0.326	-1.925	1.064	-1.455
03	-2.32	-0.999	-1.313	1.183
04	-0.867	-1.255	-1.663	1.133
05	1.361	-4.982	-2.711	-3.622
06	1.313	-1.602	-4.213	-2.711
07	-1.563	-2.985	-4.525	1.316
08	0.303	-4.982	0.968	-4.982
09	1.138	-2.598	-1.622	-0.5
10	-1.774	-2.773	-0.71	1.187
11	-3.362	-1.821	-4.982	1.334
12	1.094	-1.642	-0.999	-0.795
13	1.152	-1.201	-1.01	-1.774
14	-1.242	1.028	-1.75	-0.299
15	-0.091	0.368	-1.313	0.317

Standard thresholds

P-value	Threshold
0.001	2.83846
0.0005	4.00936
0.0001	6.44666