TBX20.H12INVITRO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX20.H12INVITRO.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	nRRGTGTKAdvKYGhbRn
GC content	49.99%
Information content (bits; total / per base)	13.927 / 0.774
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	7719

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)	0.584	0.591	0.39	0.393	0.58	0.583	1.33	1.342	4.056	6.0

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.993	0.99	0.918	0.915	0.781	0.792
Overall, 6 experiments	best	0.997	0.996	0.976	0.97	0.891	0.884
Methyl HT-SELEX, 2 experiments	median	0.929	0.916	0.846	0.834	0.74	0.739
Methyl HT-SELEX, 2 experiments	best	0.991	0.988	0.951	0.941	0.831	0.83
Non-Methyl HT-SELEX, 4 experiments	median	0.996	0.994	0.93	0.927	0.804	0.814
Non-Methyl HT-SELEX, 4 experiments	best	0.997	0.996	0.976	0.97	0.891	0.884

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.763	0.115	0.657	0.376
batch 2	0.782	0.563	0.793	0.591

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.2.SM.B.pcm
PWM	TBX20.H12INVITRO.2.SM.B.pwm
PFM	TBX20.H12INVITRO.2.SM.B.pfm
Alignment	TBX20.H12INVITRO.2.SM.B.words.tsv
Threshold to P-value map	TBX20.H12INVITRO.2.SM.B.thr
Motif in other formats
JASPAR format	TBX20.H12INVITRO.2.SM.B_jaspar_format.txt
MEME format	TBX20.H12INVITRO.2.SM.B_meme_format.meme
Transfac format	TBX20.H12INVITRO.2.SM.B_transfac_format.txt
Homer format	TBX20.H12INVITRO.2.SM.B_homer_format_0.001.txt TBX20.H12INVITRO.2.SM.B_homer_format_0.0005.txt TBX20.H12INVITRO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2461.0	1017.0	2454.0	1787.0
02	4761.25	274.25	1942.25	741.25
03	797.0	395.0	6043.0	484.0
04	17.0	117.0	7525.0	60.0
05	3.0	531.0	12.0	7173.0
06	3.0	0.0	7715.0	1.0
07	609.0	498.0	259.0	6353.0
08	244.0	935.0	4041.0	2499.0
09	7141.0	45.0	396.0	137.0
10	3429.0	596.0	2288.0	1406.0
11	1452.0	1372.0	4161.0	734.0
12	570.0	640.0	5097.0	1412.0
13	423.0	1993.0	540.0	4763.0
14	587.0	269.0	6420.0	443.0
15	1233.0	1172.0	950.0	4364.0
16	644.0	1432.0	3352.0	2291.0
17	5068.75	410.75	1216.75	1022.75
18	2359.25	1254.25	2093.25	2012.25

PFM

	A	C	G	T
01	0.319	0.132	0.318	0.232
02	0.617	0.036	0.252	0.096
03	0.103	0.051	0.783	0.063
04	0.002	0.015	0.975	0.008
05	0.0	0.069	0.002	0.929
06	0.0	0.0	0.999	0.0
07	0.079	0.065	0.034	0.823
08	0.032	0.121	0.524	0.324
09	0.925	0.006	0.051	0.018
10	0.444	0.077	0.296	0.182
11	0.188	0.178	0.539	0.095
12	0.074	0.083	0.66	0.183
13	0.055	0.258	0.07	0.617
14	0.076	0.035	0.832	0.057
15	0.16	0.152	0.123	0.565
16	0.083	0.186	0.434	0.297
17	0.657	0.053	0.158	0.132
18	0.306	0.162	0.271	0.261

PWM

	A	C	G	T
01	0.243	-0.639	0.24	-0.077
02	0.902	-1.944	0.006	-0.955
03	-0.883	-1.582	1.141	-1.38
04	-4.609	-2.785	1.36	-3.435
05	-5.91	-1.287	-4.91	1.312
06	-5.91	-6.761	1.385	-6.391
07	-1.151	-1.351	-2.001	1.191
08	-2.06	-0.723	0.738	0.258
09	1.308	-3.711	-1.579	-2.63
10	0.574	-1.172	0.17	-0.316
11	-0.284	-0.341	0.768	-0.965
12	-1.217	-1.101	0.971	-0.312
13	-1.514	0.032	-1.271	0.903
14	-1.187	-1.963	1.201	-1.468
15	-0.447	-0.498	-0.707	0.815
16	-1.095	-0.298	0.552	0.171
17	0.965	-1.543	-0.461	-0.634
18	0.201	-0.43	0.081	0.042

Standard thresholds

P-value	Threshold
0.001	3.46536
0.0005	4.57831
0.0001	6.84446