TBX20.H12INVITRO.1.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX20.H12INVITRO.1.M.C
Gene (human)	TBX20 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tbx20
Gene synonyms (mouse)	Tbx12
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	11
Consensus	nRSGTGWKAdn
GC content	49.83%
Information content (bits; total / per base)	9.082 / 0.826
Data sources	Methyl-HT-SELEX
Aligned words	8276

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
Mouse	1 (7)	0.601	0.613	0.417	0.427	0.573	0.579	1.242	1.269	6.252	7.187

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.971	0.955	0.902	0.888	0.782	0.781
Overall, 6 experiments	best	0.991	0.987	0.971	0.961	0.889	0.88
Methyl HT-SELEX, 2 experiments	median	0.918	0.893	0.841	0.816	0.748	0.735
Methyl HT-SELEX, 2 experiments	best	0.967	0.949	0.925	0.899	0.829	0.811
Non-Methyl HT-SELEX, 4 experiments	median	0.982	0.973	0.916	0.904	0.812	0.808
Non-Methyl HT-SELEX, 4 experiments	best	0.991	0.987	0.971	0.961	0.889	0.88

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.836	0.388	0.761	0.362
batch 2	0.765	0.573	0.747	0.614

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	T-Box factors {6.5} (TFClass)
TF family	TBX1-related {6.5.3} (TFClass)
TF subfamily	{6.5.3.0} (TFClass)
TFClass ID	TFClass: 6.5.3.0.5
HGNC	HGNC:11598
MGI	MGI:1888496
EntrezGene (human)	GeneID:57057 (SSTAR profile)
EntrezGene (mouse)	GeneID:57246 (SSTAR profile)
UniProt ID (human)	TBX20_HUMAN
UniProt ID (mouse)	TBX20_MOUSE
UniProt AC (human)	Q9UMR3 (TFClass)
UniProt AC (mouse)	Q9ES03 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 1 mouse
HT-SELEX	4
Methyl-HT-SELEX	2

PCM	TBX20.H12INVITRO.1.M.C.pcm
PWM	TBX20.H12INVITRO.1.M.C.pwm
PFM	TBX20.H12INVITRO.1.M.C.pfm
Alignment	TBX20.H12INVITRO.1.M.C.words.tsv
Threshold to P-value map	TBX20.H12INVITRO.1.M.C.thr
Motif in other formats
JASPAR format	TBX20.H12INVITRO.1.M.C_jaspar_format.txt
MEME format	TBX20.H12INVITRO.1.M.C_meme_format.meme
Transfac format	TBX20.H12INVITRO.1.M.C_transfac_format.txt
Homer format	TBX20.H12INVITRO.1.M.C_homer_format_0.001.txt TBX20.H12INVITRO.1.M.C_homer_format_0.0005.txt TBX20.H12INVITRO.1.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3083.75	1420.75	1985.75	1785.75
02	5309.75	437.75	1624.75	903.75
03	821.0	1624.0	5414.0	417.0
04	1.0	21.0	8254.0	0.0
05	7.0	2276.0	37.0	5956.0
06	3.0	0.0	8273.0	0.0
07	755.0	605.0	385.0	6531.0
08	393.0	534.0	4990.0	2359.0
09	6761.0	337.0	732.0	446.0
10	4105.25	847.25	1598.25	1725.25
11	2496.75	1631.75	2338.75	1808.75

PFM

	A	C	G	T
01	0.373	0.172	0.24	0.216
02	0.642	0.053	0.196	0.109
03	0.099	0.196	0.654	0.05
04	0.0	0.003	0.997	0.0
05	0.001	0.275	0.004	0.72
06	0.0	0.0	1.0	0.0
07	0.091	0.073	0.047	0.789
08	0.047	0.065	0.603	0.285
09	0.817	0.041	0.088	0.054
10	0.496	0.102	0.193	0.208
11	0.302	0.197	0.283	0.219

PWM

	A	C	G	T
01	0.399	-0.375	-0.041	-0.147
02	0.942	-1.549	-0.241	-0.827
03	-0.923	-0.242	0.961	-1.597
04	-6.456	-4.489	1.383	-6.823
05	-5.411	0.095	-3.966	1.057
06	-5.977	-6.823	1.385	-6.823
07	-1.006	-1.227	-1.677	1.149
08	-1.656	-1.351	0.88	0.131
09	1.183	-1.809	-1.037	-1.531
10	0.685	-0.891	-0.258	-0.181
11	0.188	-0.237	0.122	-0.134

Standard thresholds

P-value	Threshold
0.001	5.064125
0.0005	5.832405
0.0001	7.28848