TBX20.H12INVIVO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX20.H12INVIVO.2.SM.B
Gene (human)	TBX20 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tbx20
Gene synonyms (mouse)	Tbx12
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	18
Consensus	ndRSGTGTKAdRKbGbbd
GC content	55.03%
Information content (bits; total / per base)	13.295 / 0.739
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9800

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)	0.602	0.604	0.408	0.409	0.584	0.599	1.359	1.413	4.469	6.143

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.985	0.981	0.897	0.891	0.77	0.776
Overall, 6 experiments	best	0.995	0.994	0.965	0.958	0.879	0.868
Methyl HT-SELEX, 2 experiments	median	0.923	0.908	0.841	0.826	0.736	0.734
Methyl HT-SELEX, 2 experiments	best	0.989	0.984	0.943	0.932	0.826	0.823
Non-Methyl HT-SELEX, 4 experiments	median	0.986	0.982	0.907	0.901	0.791	0.796
Non-Methyl HT-SELEX, 4 experiments	best	0.995	0.994	0.965	0.958	0.879	0.868

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.765	0.054	0.686	0.384
batch 2	0.724	0.518	0.782	0.577

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.H12INVIVO.2.SM.B.pcm
PWM	TBX20.H12INVIVO.2.SM.B.pwm
PFM	TBX20.H12INVIVO.2.SM.B.pfm
Alignment	TBX20.H12INVIVO.2.SM.B.words.tsv
Threshold to P-value map	TBX20.H12INVIVO.2.SM.B.thr
Motif in other formats
JASPAR format	TBX20.H12INVIVO.2.SM.B_jaspar_format.txt
MEME format	TBX20.H12INVIVO.2.SM.B_meme_format.meme
Transfac format	TBX20.H12INVIVO.2.SM.B_transfac_format.txt
Homer format	TBX20.H12INVIVO.2.SM.B_homer_format_0.001.txt TBX20.H12INVIVO.2.SM.B_homer_format_0.0005.txt TBX20.H12INVIVO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1818.5	1692.5	3614.5	2674.5
02	3463.0	860.0	3576.0	1901.0
03	5814.0	341.0	2759.0	886.0
04	799.0	807.0	7841.0	353.0
05	26.0	84.0	9649.0	41.0
06	12.0	2282.0	43.0	7463.0
07	9.0	3.0	9785.0	3.0
08	763.0	607.0	453.0	7977.0
09	355.0	1390.0	5447.0	2608.0
10	8559.0	41.0	1019.0	181.0
11	4355.0	809.0	3048.0	1588.0
12	1489.0	1398.0	6130.0	783.0
13	818.0	530.0	6887.0	1565.0
14	604.0	3461.0	928.0	4807.0
15	842.0	396.0	8073.0	489.0
16	1289.0	1562.0	1535.0	5414.0
17	906.0	2335.0	4381.0	2178.0
18	5343.5	889.5	2417.5	1149.5

PFM

	A	C	G	T
01	0.186	0.173	0.369	0.273
02	0.353	0.088	0.365	0.194
03	0.593	0.035	0.282	0.09
04	0.082	0.082	0.8	0.036
05	0.003	0.009	0.985	0.004
06	0.001	0.233	0.004	0.762
07	0.001	0.0	0.998	0.0
08	0.078	0.062	0.046	0.814
09	0.036	0.142	0.556	0.266
10	0.873	0.004	0.104	0.018
11	0.444	0.083	0.311	0.162
12	0.152	0.143	0.626	0.08
13	0.083	0.054	0.703	0.16
14	0.062	0.353	0.095	0.491
15	0.086	0.04	0.824	0.05
16	0.132	0.159	0.157	0.552
17	0.092	0.238	0.447	0.222
18	0.545	0.091	0.247	0.117

PWM

	A	C	G	T
01	-0.298	-0.369	0.389	0.088
02	0.346	-1.045	0.378	-0.253
03	0.864	-1.966	0.119	-1.015
04	-1.119	-1.109	1.163	-1.932
05	-4.462	-3.347	1.37	-4.037
06	-5.145	-0.071	-3.992	1.113
07	-5.38	-6.138	1.384	-6.138
08	-1.165	-1.392	-1.684	1.18
09	-1.926	-0.566	0.798	0.062
10	1.25	-4.037	-0.876	-2.594
11	0.575	-1.106	0.218	-0.433
12	-0.497	-0.56	0.917	-1.139
13	-1.095	-1.528	1.033	-0.448
14	-1.397	0.345	-0.969	0.674
15	-1.066	-1.818	1.192	-1.608
16	-0.641	-0.45	-0.467	0.792
17	-0.993	-0.048	0.581	-0.118
18	0.779	-1.012	-0.013	-0.756

Standard thresholds

P-value	Threshold
0.001	3.73756
0.0005	4.80601
0.0001	6.97016