HNF1A.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HNF1A.H12INVITRO.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	14
Consensus	dRYWAATGWKTWRY
GC content	27.4%
Information content (bits; total / per base)	13.012 / 0.929
Data sources	ChIP-Seq + HT-SELEX
Aligned words	863

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)	0.77	0.982	0.702	0.965	0.867	0.983	4.59	5.983	72.347	681.0

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	1.0	1.0	1.0	1.0	0.977	0.981
Non-Methyl HT-SELEX, 2 experiments	best	1	1	1.0	1.0	1.0	1.0

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.753	0.553	0.792	0.58

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.H12INVITRO.0.PS.A.pcm
PWM	HNF1A.H12INVITRO.0.PS.A.pwm
PFM	HNF1A.H12INVITRO.0.PS.A.pfm
Alignment	HNF1A.H12INVITRO.0.PS.A.words.tsv
Threshold to P-value map	HNF1A.H12INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	HNF1A.H12INVITRO.0.PS.A_jaspar_format.txt
MEME format	HNF1A.H12INVITRO.0.PS.A_meme_format.meme
Transfac format	HNF1A.H12INVITRO.0.PS.A_transfac_format.txt
Homer format	HNF1A.H12INVITRO.0.PS.A_homer_format_0.001.txt HNF1A.H12INVITRO.0.PS.A_homer_format_0.0005.txt HNF1A.H12INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	293.0	60.0	321.0	189.0
02	151.0	51.0	604.0	57.0
03	29.0	100.0	61.0	673.0
04	102.0	84.0	63.0	614.0
05	787.0	29.0	29.0	18.0
06	765.0	61.0	21.0	16.0
07	57.0	10.0	18.0	778.0
08	266.0	3.0	588.0	6.0
09	632.0	29.0	58.0	144.0
10	40.0	22.0	121.0	680.0
11	22.0	39.0	9.0	793.0
12	601.0	44.0	104.0	114.0
13	642.0	78.0	95.0	48.0
14	83.0	558.0	51.0	171.0

PFM

	A	C	G	T
01	0.34	0.07	0.372	0.219
02	0.175	0.059	0.7	0.066
03	0.034	0.116	0.071	0.78
04	0.118	0.097	0.073	0.711
05	0.912	0.034	0.034	0.021
06	0.886	0.071	0.024	0.019
07	0.066	0.012	0.021	0.902
08	0.308	0.003	0.681	0.007
09	0.732	0.034	0.067	0.167
10	0.046	0.025	0.14	0.788
11	0.025	0.045	0.01	0.919
12	0.696	0.051	0.121	0.132
13	0.744	0.09	0.11	0.056
14	0.096	0.647	0.059	0.198

PWM

	A	C	G	T
01	0.304	-1.26	0.395	-0.131
02	-0.354	-1.417	1.024	-1.31
03	-1.958	-0.76	-1.244	1.132
04	-0.741	-0.931	-1.212	1.041
05	1.288	-1.958	-1.958	-2.402
06	1.26	-1.244	-2.26	-2.509
07	-1.31	-2.923	-2.402	1.277
08	0.208	-3.836	0.998	-3.342
09	1.07	-1.958	-1.293	-0.4
10	-1.652	-2.217	-0.572	1.143
11	-2.217	-1.676	-3.013	1.296
12	1.019	-1.56	-0.721	-0.631
13	1.085	-1.004	-0.81	-1.476
14	-0.943	0.945	-1.417	-0.23

Standard thresholds

P-value	Threshold
0.001	3.97396
0.0005	4.92916
0.0001	6.94066