HNF1B.H12INVIVO.1.P.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HNF1B.H12INVIVO.1.P.D
Gene (human)	HNF1B (GeneCards)
Gene synonyms (human)	TCF2
Gene (mouse)	Hnf1b
Gene synonyms (mouse)	Hnf-1b, Tcf2
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	11
Consensus	dGTTAATnATT
GC content	21.31%
Information content (bits; total / per base)	13.675 / 1.243
Data sources	ChIP-Seq
Aligned words	500

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)	0.935	0.965	0.896	0.935	0.951	0.971	4.644	4.996	234.497	447.569
Mouse	4 (27)	0.962	0.97	0.929	0.946	0.96	0.967	4.559	5.083	463.569	712.328

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	1.0	1.0	0.995	0.994	0.849	0.881
Non-Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	1.0	0.922	0.937

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.917	0.369	0.942	0.585
batch 2	0.966	0.759	0.82	0.446

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.H12INVIVO.1.P.D.pcm
PWM	HNF1B.H12INVIVO.1.P.D.pwm
PFM	HNF1B.H12INVIVO.1.P.D.pfm
Alignment	HNF1B.H12INVIVO.1.P.D.words.tsv
Threshold to P-value map	HNF1B.H12INVIVO.1.P.D.thr
Motif in other formats
JASPAR format	HNF1B.H12INVIVO.1.P.D_jaspar_format.txt
MEME format	HNF1B.H12INVIVO.1.P.D_meme_format.meme
Transfac format	HNF1B.H12INVIVO.1.P.D_transfac_format.txt
Homer format	HNF1B.H12INVIVO.1.P.D_homer_format_0.001.txt HNF1B.H12INVIVO.1.P.D_homer_format_0.0005.txt HNF1B.H12INVIVO.1.P.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	195.0	6.0	187.0	112.0
02	26.0	2.0	465.0	7.0
03	0.0	21.0	4.0	475.0
04	36.0	15.0	6.0	443.0
05	493.0	0.0	6.0	1.0
06	467.0	23.0	2.0	8.0
07	40.0	15.0	4.0	441.0
08	128.0	129.0	174.0	69.0
09	407.0	1.0	17.0	75.0
10	19.0	12.0	57.0	412.0
11	8.0	24.0	2.0	466.0

PFM

	A	C	G	T
01	0.39	0.012	0.374	0.224
02	0.052	0.004	0.93	0.014
03	0.0	0.042	0.008	0.95
04	0.072	0.03	0.012	0.886
05	0.986	0.0	0.012	0.002
06	0.934	0.046	0.004	0.016
07	0.08	0.03	0.008	0.882
08	0.256	0.258	0.348	0.138
09	0.814	0.002	0.034	0.15
10	0.038	0.024	0.114	0.824
11	0.016	0.048	0.004	0.932

PWM

	A	C	G	T
01	0.44	-2.819	0.399	-0.108
02	-1.525	-3.573	1.305	-2.694
03	-4.4	-1.725	-3.126	1.326
04	-1.215	-2.034	-2.819	1.256
05	1.363	-4.4	-2.819	-3.903
06	1.309	-1.64	-3.573	-2.584
07	-1.114	-2.034	-3.126	1.252
08	0.023	0.031	0.327	-0.584
09	1.172	-3.903	-1.92	-0.503
10	-1.818	-2.234	-0.771	1.184
11	-2.584	-1.6	-3.573	1.307

Standard thresholds

P-value	Threshold
0.001	3.554915
0.0005	4.65577
0.0001	6.899265