TBX20.H13RSNP.1.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX20.H13RSNP.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	12
Consensus	ndRSGTGTKAdn
GC content	47.39%
Information content (bits; total / per base)	11.152 / 0.929
Data sources	Methyl-HT-SELEX
Aligned words	7633
Previous names	TBX20.H12RSNP.1.M.C

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)	0.593	0.607	0.415	0.426	0.573	0.576	1.246	1.273	3.409	4.456

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.97	0.952	0.894	0.879	0.778	0.775
Overall, 6 experiments	best	0.99	0.985	0.971	0.96	0.892	0.882
Methyl HT-SELEX, 2 experiments	median	0.918	0.892	0.843	0.817	0.749	0.736
Methyl HT-SELEX, 2 experiments	best	0.966	0.947	0.927	0.9	0.832	0.814
Non-Methyl HT-SELEX, 4 experiments	median	0.977	0.967	0.906	0.893	0.806	0.801
Non-Methyl HT-SELEX, 4 experiments	best	0.99	0.985	0.971	0.96	0.892	0.882

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.869	0.452	0.799	0.384
batch 2	0.768	0.589	0.785	0.62

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	TBX20.H13RSNP.1.M.C.pcm
PWM	TBX20.H13RSNP.1.M.C.pwm
PFM	TBX20.H13RSNP.1.M.C.pfm
Threshold to P-value map	TBX20.H13RSNP.1.M.C.thr
Motif in other formats
JASPAR format	TBX20.H13RSNP.1.M.C_jaspar_format.txt
MEME format	TBX20.H13RSNP.1.M.C_meme_format.meme
Transfac format	TBX20.H13RSNP.1.M.C_transfac_format.txt
Homer format	TBX20.H13RSNP.1.M.C_homer_format_0.001.txt TBX20.H13RSNP.1.M.C_homer_format_0.0005.txt TBX20.H13RSNP.1.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1663.5	1374.5	2329.5	2265.5
02	3639.75	707.75	1895.75	1389.75
03	5903.0	224.0	1012.0	494.0
04	661.0	986.0	5723.0	263.0
05	14.0	12.0	7600.0	7.0
06	0.0	2025.0	33.0	5575.0
07	4.0	1.0	7628.0	0.0
08	323.0	464.0	101.0	6745.0
09	126.0	514.0	5284.0	1709.0
10	7118.0	101.0	273.0	141.0
11	4378.25	665.25	1063.25	1526.25
12	2597.5	1436.5	1956.5	1642.5

PFM

	A	C	G	T
01	0.218	0.18	0.305	0.297
02	0.477	0.093	0.248	0.182
03	0.773	0.029	0.133	0.065
04	0.087	0.129	0.75	0.034
05	0.002	0.002	0.996	0.001
06	0.0	0.265	0.004	0.73
07	0.001	0.0	0.999	0.0
08	0.042	0.061	0.013	0.884
09	0.017	0.067	0.692	0.224
10	0.933	0.013	0.036	0.018
11	0.574	0.087	0.139	0.2
12	0.34	0.188	0.256	0.215

PWM

	A	C	G	T
01	-0.137	-0.328	0.199	0.171
02	0.645	-0.99	-0.007	-0.317
03	1.128	-2.134	-0.633	-1.348
04	-1.058	-0.659	1.098	-1.974
05	-4.768	-4.899	1.381	-5.332
06	-6.751	0.059	-3.993	1.071
07	-5.725	-6.381	1.385	-6.751
08	-1.771	-1.41	-2.918	1.262
09	-2.701	-1.309	1.018	-0.11
10	1.316	-2.918	-1.937	-2.591
11	0.83	-1.052	-0.584	-0.223
12	0.308	-0.284	0.025	-0.15

Standard thresholds

P-value	Threshold
0.001	4.423565
0.0005	5.43387
0.0001	7.38042