TBX4.H12INVIVO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX4.H12INVIVO.1.S.B
Gene (human)	TBX4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tbx4
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	23
Consensus	ndAGGTGTKAnddnhvhMMYbYn
GC content	45.65%
Information content (bits; total / per base)	18.618 / 0.809
Data sources	HT-SELEX
Aligned words	631

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 (5)	0.636	0.641	0.467	0.47	0.589	0.591	1.376	1.399	10.921	13.921

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.965	0.961	0.862	0.861	0.724	0.741
Non-Methyl HT-SELEX, 2 experiments	best	0.999	0.999	0.949	0.947	0.789	0.808

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	T-Box factors {6.5} (TFClass)
TF family	TBX2-related {6.5.4} (TFClass)
TF subfamily	{6.5.4.0} (TFClass)
TFClass ID	TFClass: 6.5.4.0.3
HGNC	HGNC:11603
MGI	MGI:102556
EntrezGene (human)	GeneID:9496 (SSTAR profile)
EntrezGene (mouse)	GeneID:21387 (SSTAR profile)
UniProt ID (human)	TBX4_HUMAN
UniProt ID (mouse)	TBX4_MOUSE
UniProt AC (human)	P57082 (TFClass)
UniProt AC (mouse)	P70325 (TFClass)
GRECO-DB-TF	yes

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

PCM	TBX4.H12INVIVO.1.S.B.pcm
PWM	TBX4.H12INVIVO.1.S.B.pwm
PFM	TBX4.H12INVIVO.1.S.B.pfm
Alignment	TBX4.H12INVIVO.1.S.B.words.tsv
Threshold to P-value map	TBX4.H12INVIVO.1.S.B.thr
Motif in other formats
JASPAR format	TBX4.H12INVIVO.1.S.B_jaspar_format.txt
MEME format	TBX4.H12INVIVO.1.S.B_meme_format.meme
Transfac format	TBX4.H12INVIVO.1.S.B_transfac_format.txt
Homer format	TBX4.H12INVIVO.1.S.B_homer_format_0.001.txt TBX4.H12INVIVO.1.S.B_homer_format_0.0005.txt TBX4.H12INVIVO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	194.5	116.5	172.5	147.5
02	303.0	39.0	170.0	119.0
03	628.0	0.0	3.0	0.0
04	4.0	3.0	622.0	2.0
05	0.0	0.0	631.0	0.0
06	0.0	2.0	0.0	629.0
07	0.0	0.0	631.0	0.0
08	9.0	5.0	1.0	616.0
09	3.0	59.0	403.0	166.0
10	574.0	8.0	39.0	10.0
11	240.0	106.0	117.0	168.0
12	281.0	53.0	105.0	192.0
13	163.0	70.0	79.0	319.0
14	144.0	139.0	126.0	222.0
15	91.0	115.0	82.0	343.0
16	172.0	252.0	147.0	60.0
17	345.0	123.0	75.0	88.0
18	101.0	481.0	27.0	22.0
19	367.0	138.0	82.0	44.0
20	28.0	498.0	29.0	76.0
21	44.0	331.0	82.0	174.0
22	61.75	102.75	60.75	405.75
23	130.0	176.0	124.0	201.0

PFM

	A	C	G	T
01	0.308	0.185	0.273	0.234
02	0.48	0.062	0.269	0.189
03	0.995	0.0	0.005	0.0
04	0.006	0.005	0.986	0.003
05	0.0	0.0	1.0	0.0
06	0.0	0.003	0.0	0.997
07	0.0	0.0	1.0	0.0
08	0.014	0.008	0.002	0.976
09	0.005	0.094	0.639	0.263
10	0.91	0.013	0.062	0.016
11	0.38	0.168	0.185	0.266
12	0.445	0.084	0.166	0.304
13	0.258	0.111	0.125	0.506
14	0.228	0.22	0.2	0.352
15	0.144	0.182	0.13	0.544
16	0.273	0.399	0.233	0.095
17	0.547	0.195	0.119	0.139
18	0.16	0.762	0.043	0.035
19	0.582	0.219	0.13	0.07
20	0.044	0.789	0.046	0.12
21	0.07	0.525	0.13	0.276
22	0.098	0.163	0.096	0.643
23	0.206	0.279	0.197	0.319

PWM

	A	C	G	T
01	0.208	-0.3	0.089	-0.066
02	0.648	-1.367	0.074	-0.279
03	1.374	-4.594	-3.543	-4.594
04	-3.346	-3.543	1.364	-3.787
05	-4.594	-4.594	1.379	-4.594
06	-4.594	-3.787	-4.594	1.376
07	-4.594	-4.594	1.379	-4.594
08	-2.709	-3.182	-4.111	1.355
09	-3.543	-0.967	0.932	0.05
10	1.284	-2.808	-1.367	-2.619
11	0.416	-0.393	-0.295	0.062
12	0.573	-1.071	-0.402	0.195
13	0.032	-0.8	-0.682	0.699
14	-0.09	-0.125	-0.222	0.339
15	-0.543	-0.312	-0.645	0.771
16	0.086	0.465	-0.07	-0.95
17	0.777	-0.246	-0.732	-0.576
18	-0.44	1.108	-1.717	-1.909
19	0.839	-0.132	-0.645	-1.251
20	-1.683	1.143	-1.65	-0.719
21	-1.251	0.736	-0.645	0.097
22	-0.922	-0.423	-0.938	0.939
23	-0.191	0.108	-0.238	0.24

Standard thresholds

P-value	Threshold
0.001	0.70931
0.0005	2.17386
0.0001	5.24146