TBX4.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX4.H12INVITRO.0.PS.A
Gene (human)	TBX4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tbx4
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	14
Consensus	ndAGGTGTKRnddn
GC content	44.99%
Information content (bits; total / per base)	12.666 / 0.905
Data sources	ChIP-Seq + HT-SELEX
Aligned words	2484

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)	0.66	0.664	0.502	0.506	0.646	0.65	1.636	1.658	23.959	26.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.949	0.935	0.86	0.847	0.737	0.74
Non-Methyl HT-SELEX, 2 experiments	best	0.989	0.985	0.938	0.927	0.799	0.805

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.H12INVITRO.0.PS.A.pcm
PWM	TBX4.H12INVITRO.0.PS.A.pwm
PFM	TBX4.H12INVITRO.0.PS.A.pfm
Alignment	TBX4.H12INVITRO.0.PS.A.words.tsv
Threshold to P-value map	TBX4.H12INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	TBX4.H12INVITRO.0.PS.A_jaspar_format.txt
MEME format	TBX4.H12INVITRO.0.PS.A_meme_format.meme
Transfac format	TBX4.H12INVITRO.0.PS.A_transfac_format.txt
Homer format	TBX4.H12INVITRO.0.PS.A_homer_format_0.001.txt TBX4.H12INVITRO.0.PS.A_homer_format_0.0005.txt TBX4.H12INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	705.0	489.0	661.0	629.0
02	1030.25	214.25	734.25	505.25
03	2365.0	10.0	83.0	26.0
04	45.0	14.0	2405.0	20.0
05	0.0	0.0	2484.0	0.0
06	0.0	13.0	3.0	2468.0
07	1.0	0.0	2483.0	0.0
08	61.0	93.0	34.0	2296.0
09	68.0	349.0	1359.0	708.0
10	1903.0	102.0	310.0	169.0
11	779.0	519.0	567.0	619.0
12	929.0	356.0	516.0	683.0
13	638.0	365.0	418.0	1063.0
14	555.25	539.25	523.25	866.25

PFM

	A	C	G	T
01	0.284	0.197	0.266	0.253
02	0.415	0.086	0.296	0.203
03	0.952	0.004	0.033	0.01
04	0.018	0.006	0.968	0.008
05	0.0	0.0	1.0	0.0
06	0.0	0.005	0.001	0.994
07	0.0	0.0	1.0	0.0
08	0.025	0.037	0.014	0.924
09	0.027	0.14	0.547	0.285
10	0.766	0.041	0.125	0.068
11	0.314	0.209	0.228	0.249
12	0.374	0.143	0.208	0.275
13	0.257	0.147	0.168	0.428
14	0.224	0.217	0.211	0.349

PWM

	A	C	G	T
01	0.126	-0.238	0.062	0.013
02	0.505	-1.058	0.167	-0.206
03	1.335	-3.953	-1.992	-3.104
04	-2.585	-3.665	1.352	-3.346
05	-5.764	-5.764	1.384	-5.764
06	-5.764	-3.729	-4.834	1.377
07	-5.351	-5.764	1.384	-5.764
08	-2.292	-1.881	-2.852	1.305
09	-2.187	-0.574	0.781	0.131
10	1.118	-1.791	-0.692	-1.293
11	0.226	-0.179	-0.091	-0.003
12	0.402	-0.554	-0.185	0.095
13	0.027	-0.529	-0.394	0.536
14	-0.112	-0.141	-0.171	0.332

Standard thresholds

P-value	Threshold
0.001	3.46506
0.0005	4.70861
0.0001	7.22926