TBX19.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX19.H12INVIVO.0.PS.A
Gene (human)	TBX19 (GeneCards)
Gene synonyms (human)	TPIT
Gene (mouse)	Tbx19
Gene synonyms (mouse)	Tpit
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	19
Consensus	TvdYRvnnnnvTGhbARdd
GC content	42.98%
Information content (bits; total / per base)	10.268 / 0.54
Data sources	ChIP-Seq + HT-SELEX
Aligned words	808

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	2 (9)	0.891	0.905	0.829	0.845	0.858	0.867	3.406	3.484	349.824	384.77

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.994	0.992	0.978	0.97	0.927	0.923
Overall, 4 experiments	best	1.0	1.0	0.999	0.998	0.94	0.925
Methyl HT-SELEX, 1 experiments	median	0.994	0.991	0.978	0.97	0.936	0.922
Methyl HT-SELEX, 1 experiments	best	0.994	0.991	0.978	0.97	0.936	0.922
Non-Methyl HT-SELEX, 3 experiments	median	0.995	0.993	0.978	0.971	0.917	0.925
Non-Methyl HT-SELEX, 3 experiments	best	1.0	1.0	0.999	0.998	0.94	0.925

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: 6.5.1.0.2
HGNC	HGNC:11596
MGI	MGI:1891158
EntrezGene (human)	GeneID:9095 (SSTAR profile)
EntrezGene (mouse)	GeneID:83993 (SSTAR profile)
UniProt ID (human)	TBX19_HUMAN
UniProt ID (mouse)	TBX19_MOUSE
UniProt AC (human)	O60806 (TFClass)
UniProt AC (mouse)	Q99ME7 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	TBX19.H12INVIVO.0.PS.A.pcm
PWM	TBX19.H12INVIVO.0.PS.A.pwm
PFM	TBX19.H12INVIVO.0.PS.A.pfm
Alignment	TBX19.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	TBX19.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	TBX19.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	TBX19.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	TBX19.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	TBX19.H12INVIVO.0.PS.A_homer_format_0.001.txt TBX19.H12INVIVO.0.PS.A_homer_format_0.0005.txt TBX19.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	53.0	35.0	16.0	704.0
02	304.0	214.0	197.0	93.0
03	331.0	50.0	303.0	124.0
04	60.0	624.0	55.0	69.0
05	569.0	43.0	120.0	76.0
06	144.0	287.0	277.0	100.0
07	204.0	218.0	241.0	145.0
08	245.0	190.0	159.0	214.0
09	313.0	195.0	144.0	156.0
10	228.0	165.0	234.0	181.0
11	133.0	211.0	407.0	57.0
12	33.0	39.0	14.0	722.0
13	8.0	2.0	796.0	2.0
14	194.0	153.0	47.0	414.0
15	58.0	119.0	390.0	241.0
16	733.0	3.0	66.0	6.0
17	596.0	59.0	103.0	50.0
18	357.0	93.0	137.0	221.0
19	244.0	76.0	117.0	371.0

PFM

	A	C	G	T
01	0.066	0.043	0.02	0.871
02	0.376	0.265	0.244	0.115
03	0.41	0.062	0.375	0.153
04	0.074	0.772	0.068	0.085
05	0.704	0.053	0.149	0.094
06	0.178	0.355	0.343	0.124
07	0.252	0.27	0.298	0.179
08	0.303	0.235	0.197	0.265
09	0.387	0.241	0.178	0.193
10	0.282	0.204	0.29	0.224
11	0.165	0.261	0.504	0.071
12	0.041	0.048	0.017	0.894
13	0.01	0.002	0.985	0.002
14	0.24	0.189	0.058	0.512
15	0.072	0.147	0.483	0.298
16	0.907	0.004	0.082	0.007
17	0.738	0.073	0.127	0.062
18	0.442	0.115	0.17	0.274
19	0.302	0.094	0.145	0.459

PWM

	A	C	G	T
01	-1.315	-1.714	-2.444	1.243
02	0.406	0.057	-0.025	-0.766
03	0.491	-1.372	0.403	-0.483
04	-1.195	1.122	-1.279	-1.058
05	1.03	-1.517	-0.515	-0.964
06	-0.335	0.349	0.314	-0.695
07	0.01	0.076	0.175	-0.328
08	0.192	-0.061	-0.237	0.057
09	0.435	-0.035	-0.335	-0.256
10	0.12	-0.2	0.146	-0.109
11	-0.414	0.043	0.696	-1.245
12	-1.771	-1.611	-2.565	1.268
13	-3.047	-4.015	1.365	-4.015
14	-0.04	-0.275	-1.431	0.713
15	-1.228	-0.523	0.654	0.175
16	1.283	-3.775	-1.102	-3.279
17	1.077	-1.211	-0.666	-1.372
18	0.566	-0.766	-0.384	0.089
19	0.187	-0.964	-0.54	0.604

Standard thresholds

P-value	Threshold
0.001	4.68016
0.0005	5.50786
0.0001	7.20626