TBX20.H12RSNP.0.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX20.H12RSNP.0.P.C
Gene (human)	TBX20 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tbx20
Gene synonyms (mouse)	Tbx12
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	C

Motif length	13
Consensus	nddSWGnKGRSAK
GC content	53.92%
Information content (bits; total / per base)	8.906 / 0.685
Data sources	ChIP-Seq
Aligned words	1002

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)	0.86	0.891	0.806	0.853	0.821	0.859	3.114	3.497	159.854	206.824

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.525	0.514	0.526	0.513	0.525	0.513
Overall, 6 experiments	best	0.626	0.572	0.603	0.563	0.583	0.553
Methyl HT-SELEX, 2 experiments	median	0.525	0.514	0.521	0.512	0.518	0.511
Methyl HT-SELEX, 2 experiments	best	0.537	0.522	0.534	0.519	0.53	0.517
Non-Methyl HT-SELEX, 4 experiments	median	0.563	0.535	0.558	0.532	0.545	0.527
Non-Methyl HT-SELEX, 4 experiments	best	0.626	0.572	0.603	0.563	0.583	0.553

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.587	0.008	0.546	0.303
batch 2	0.553	0.235	0.253	0.101

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.H12RSNP.0.P.C.pcm
PWM	TBX20.H12RSNP.0.P.C.pwm
PFM	TBX20.H12RSNP.0.P.C.pfm
Alignment	TBX20.H12RSNP.0.P.C.words.tsv
Threshold to P-value map	TBX20.H12RSNP.0.P.C.thr
Motif in other formats
JASPAR format	TBX20.H12RSNP.0.P.C_jaspar_format.txt
MEME format	TBX20.H12RSNP.0.P.C_meme_format.meme
Transfac format	TBX20.H12RSNP.0.P.C_transfac_format.txt
Homer format	TBX20.H12RSNP.0.P.C_homer_format_0.001.txt TBX20.H12RSNP.0.P.C_homer_format_0.0005.txt TBX20.H12RSNP.0.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	291.0	190.0	329.0	192.0
02	312.0	151.0	353.0	186.0
03	264.0	91.0	471.0	176.0
04	50.0	274.0	581.0	97.0
05	168.0	55.0	25.0	754.0
06	20.0	56.0	911.0	15.0
07	181.0	347.0	223.0	251.0
08	109.0	21.0	117.0	755.0
09	35.0	6.0	951.0	10.0
10	738.0	66.0	127.0	71.0
11	114.0	702.0	152.0	34.0
12	811.0	24.0	49.0	118.0
13	115.0	57.0	695.0	135.0

PFM

	A	C	G	T
01	0.29	0.19	0.328	0.192
02	0.311	0.151	0.352	0.186
03	0.263	0.091	0.47	0.176
04	0.05	0.273	0.58	0.097
05	0.168	0.055	0.025	0.752
06	0.02	0.056	0.909	0.015
07	0.181	0.346	0.223	0.25
08	0.109	0.021	0.117	0.753
09	0.035	0.006	0.949	0.01
10	0.737	0.066	0.127	0.071
11	0.114	0.701	0.152	0.034
12	0.809	0.024	0.049	0.118
13	0.115	0.057	0.694	0.135

PWM

	A	C	G	T
01	0.149	-0.274	0.271	-0.264
02	0.218	-0.502	0.341	-0.295
03	0.052	-1.001	0.628	-0.35
04	-1.584	0.089	0.837	-0.938
05	-0.396	-1.492	-2.245	1.097
06	-2.452	-1.475	1.286	-2.713
07	-0.322	0.324	-0.115	0.002
08	-0.823	-2.407	-0.754	1.099
09	-1.927	-3.486	1.329	-3.068
10	1.076	-1.315	-0.673	-1.244
11	-0.779	1.026	-0.495	-1.954
12	1.17	-2.283	-1.604	-0.745
13	-0.77	-1.457	1.016	-0.612

Standard thresholds

P-value	Threshold
0.001	4.87096
0.0005	5.61346
0.0001	7.134225