TBXT.H12CORE.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBXT.H12CORE.0.PS.A
Gene (human)	TBXT (GeneCards)
Gene synonyms (human)	T
Gene (mouse)	Tbxt
Gene synonyms (mouse)	T
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	20
Consensus	dYvdSRvndvdSTGWKARdd
GC content	45.3%
Information content (bits; total / per base)	11.588 / 0.579
Data sources	ChIP-Seq + HT-SELEX
Aligned words	845

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
Human	2 (14)	0.821	0.853	0.746	0.768	0.801	0.843	3.045	3.215	104.051	143.921
Mouse	6 (36)	0.795	0.972	0.775	0.955	0.784	0.959	3.999	6.19	195.674	473.745

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.988	0.982	0.97	0.958	0.927	0.911
Overall, 6 experiments	best	0.999	0.998	0.995	0.992	0.978	0.972
Methyl HT-SELEX, 2 experiments	median	0.988	0.981	0.97	0.958	0.927	0.911
Methyl HT-SELEX, 2 experiments	best	0.996	0.994	0.987	0.982	0.959	0.948
Non-Methyl HT-SELEX, 4 experiments	median	0.983	0.982	0.873	0.883	0.793	0.808
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.998	0.995	0.992	0.978	0.972

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	T-Box factors {6.5} (TFClass)
TF family	Brachyury-related {6.5.1} (TFClass)
TF subfamily	{6.5.1.0} (TFClass)
TFClass ID	TFClass: 6.5.1.0.1
HGNC	HGNC:11515
MGI	MGI:98472
EntrezGene (human)	GeneID:6862 (SSTAR profile)
EntrezGene (mouse)	GeneID:20997 (SSTAR profile)
UniProt ID (human)	TBXT_HUMAN
UniProt ID (mouse)	TBXT_MOUSE
UniProt AC (human)	O15178 (TFClass)
UniProt AC (mouse)	P20293 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 6 mouse
HT-SELEX	4
Methyl-HT-SELEX	2

PCM	TBXT.H12CORE.0.PS.A.pcm
PWM	TBXT.H12CORE.0.PS.A.pwm
PFM	TBXT.H12CORE.0.PS.A.pfm
Alignment	TBXT.H12CORE.0.PS.A.words.tsv
Threshold to P-value map	TBXT.H12CORE.0.PS.A.thr
Motif in other formats
JASPAR format	TBXT.H12CORE.0.PS.A_jaspar_format.txt
MEME format	TBXT.H12CORE.0.PS.A_meme_format.meme
Transfac format	TBXT.H12CORE.0.PS.A_transfac_format.txt
Homer format	TBXT.H12CORE.0.PS.A_homer_format_0.001.txt TBXT.H12CORE.0.PS.A_homer_format_0.0005.txt TBXT.H12CORE.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	146.0	117.0	131.0	451.0
02	40.0	95.0	58.0	652.0
03	395.0	159.0	205.0	86.0
04	285.0	59.0	385.0	116.0
05	50.0	660.0	86.0	49.0
06	625.0	36.0	120.0	64.0
07	131.0	320.0	332.0	62.0
08	151.0	206.0	231.0	257.0
09	355.0	106.0	229.0	155.0
10	423.0	77.0	281.0	64.0
11	246.0	109.0	376.0	114.0
12	60.0	179.0	555.0	51.0
13	61.0	42.0	26.0	716.0
14	7.0	6.0	827.0	5.0
15	126.0	124.0	60.0	535.0
16	32.0	113.0	536.0	164.0
17	793.0	8.0	37.0	7.0
18	586.0	56.0	150.0	53.0
19	335.0	96.0	182.0	232.0
20	138.0	130.0	150.0	427.0

PFM

	A	C	G	T
01	0.173	0.138	0.155	0.534
02	0.047	0.112	0.069	0.772
03	0.467	0.188	0.243	0.102
04	0.337	0.07	0.456	0.137
05	0.059	0.781	0.102	0.058
06	0.74	0.043	0.142	0.076
07	0.155	0.379	0.393	0.073
08	0.179	0.244	0.273	0.304
09	0.42	0.125	0.271	0.183
10	0.501	0.091	0.333	0.076
11	0.291	0.129	0.445	0.135
12	0.071	0.212	0.657	0.06
13	0.072	0.05	0.031	0.847
14	0.008	0.007	0.979	0.006
15	0.149	0.147	0.071	0.633
16	0.038	0.134	0.634	0.194
17	0.938	0.009	0.044	0.008
18	0.693	0.066	0.178	0.063
19	0.396	0.114	0.215	0.275
20	0.163	0.154	0.178	0.505

PWM

	A	C	G	T
01	-0.366	-0.585	-0.473	0.754
02	-1.631	-0.79	-1.272	1.122
03	0.622	-0.282	-0.03	-0.887
04	0.297	-1.255	0.597	-0.593
05	-1.416	1.134	-0.887	-1.435
06	1.079	-1.732	-0.56	-1.176
07	-0.473	0.413	0.449	-1.207
08	-0.333	-0.025	0.089	0.195
09	0.516	-0.682	0.08	-0.307
10	0.69	-0.996	0.283	-1.176
11	0.151	-0.654	0.573	-0.61
12	-1.239	-0.164	0.961	-1.397
13	-1.223	-1.584	-2.04	1.215
14	-3.199	-3.322	1.359	-3.461
15	-0.511	-0.527	-1.239	0.924
16	-1.844	-0.619	0.926	-0.251
17	1.317	-3.09	-1.706	-3.199
18	1.015	-1.306	-0.339	-1.359
19	0.458	-0.779	-0.148	0.093
20	-0.422	-0.481	-0.339	0.7

Standard thresholds

P-value	Threshold
0.001	4.38036
0.0005	5.25446
0.0001	7.08191