TBX19.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX19.H12INVITRO.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	22
Consensus	ddTvdCRhnWRKGTGYKAWddn
GC content	42.51%
Information content (bits; total / per base)	16.294 / 0.741
Data sources	ChIP-Seq + HT-SELEX
Aligned words	7617

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)	0.86	0.87	0.786	0.79	0.821	0.83	3.05	3.091	284.699	325.284

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.998	0.997	0.991	0.988	0.95	0.949
Overall, 4 experiments	best	1.0	1.0	1.0	1.0	0.974	0.966
Methyl HT-SELEX, 1 experiments	median	0.998	0.996	0.991	0.988	0.97	0.962
Methyl HT-SELEX, 1 experiments	best	0.998	0.996	0.991	0.988	0.97	0.962
Non-Methyl HT-SELEX, 3 experiments	median	0.999	0.998	0.992	0.988	0.929	0.936
Non-Methyl HT-SELEX, 3 experiments	best	1.0	1.0	1.0	1.0	0.974	0.966

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.H12INVITRO.0.PS.A.pcm
PWM	TBX19.H12INVITRO.0.PS.A.pwm
PFM	TBX19.H12INVITRO.0.PS.A.pfm
Alignment	TBX19.H12INVITRO.0.PS.A.words.tsv
Threshold to P-value map	TBX19.H12INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	TBX19.H12INVITRO.0.PS.A_jaspar_format.txt
MEME format	TBX19.H12INVITRO.0.PS.A_meme_format.meme
Transfac format	TBX19.H12INVITRO.0.PS.A_transfac_format.txt
Homer format	TBX19.H12INVITRO.0.PS.A_homer_format_0.001.txt TBX19.H12INVITRO.0.PS.A_homer_format_0.0005.txt TBX19.H12INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1775.5	1269.5	1525.5	3046.5
02	1306.0	1024.0	1437.0	3850.0
03	305.0	480.0	265.0	6567.0
04	2129.0	3535.0	1370.0	583.0
05	3839.0	390.0	2502.0	886.0
06	295.0	6701.0	269.0	352.0
07	5727.0	286.0	1349.0	255.0
08	919.0	4067.0	772.0	1859.0
09	1969.0	2151.0	2274.0	1223.0
10	1318.0	721.0	919.0	4659.0
11	5886.0	269.0	948.0	514.0
12	813.0	947.0	4731.0	1126.0
13	563.0	68.0	6857.0	129.0
14	3.0	198.0	83.0	7333.0
15	7.0	1.0	7603.0	6.0
16	279.0	1627.0	97.0	5614.0
17	119.0	307.0	5798.0	1393.0
18	7363.0	67.0	132.0	55.0
19	4692.0	844.0	838.0	1243.0
20	3934.0	932.0	962.0	1789.0
21	2571.75	735.75	909.75	3399.75
22	2014.75	1562.75	1414.75	2624.75

PFM

	A	C	G	T
01	0.233	0.167	0.2	0.4
02	0.171	0.134	0.189	0.505
03	0.04	0.063	0.035	0.862
04	0.28	0.464	0.18	0.077
05	0.504	0.051	0.328	0.116
06	0.039	0.88	0.035	0.046
07	0.752	0.038	0.177	0.033
08	0.121	0.534	0.101	0.244
09	0.259	0.282	0.299	0.161
10	0.173	0.095	0.121	0.612
11	0.773	0.035	0.124	0.067
12	0.107	0.124	0.621	0.148
13	0.074	0.009	0.9	0.017
14	0.0	0.026	0.011	0.963
15	0.001	0.0	0.998	0.001
16	0.037	0.214	0.013	0.737
17	0.016	0.04	0.761	0.183
18	0.967	0.009	0.017	0.007
19	0.616	0.111	0.11	0.163
20	0.516	0.122	0.126	0.235
21	0.338	0.097	0.119	0.446
22	0.265	0.205	0.186	0.345

PWM

	A	C	G	T
01	-0.07	-0.405	-0.221	0.469
02	-0.377	-0.619	-0.281	0.703
03	-1.825	-1.375	-1.965	1.237
04	0.111	0.618	-0.329	-1.181
05	0.701	-1.581	0.273	-0.764
06	-1.858	1.257	-1.95	-1.683
07	1.1	-1.889	-0.344	-2.003
08	-0.727	0.758	-0.901	-0.024
09	0.033	0.122	0.177	-0.442
10	-0.367	-0.969	-0.727	0.894
11	1.128	-1.95	-0.696	-1.306
12	-0.85	-0.697	0.909	-0.525
13	-1.216	-3.301	1.28	-2.676
14	-5.898	-2.254	-3.108	1.347
15	-5.33	-6.379	1.384	-5.445
16	-1.914	-0.157	-2.956	1.08
17	-2.755	-1.819	1.113	-0.312
18	1.352	-3.316	-2.653	-3.506
19	0.901	-0.812	-0.819	-0.426
20	0.725	-0.713	-0.682	-0.062
21	0.3	-0.949	-0.737	0.579
22	0.056	-0.197	-0.297	0.321

Standard thresholds

P-value	Threshold
0.001	2.51281
0.0005	3.71926
0.0001	6.23126