TBX5.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX5.H12INVITRO.0.PS.A
Gene (human)	TBX5 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tbx5
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	13
Consensus	nRAGGTGTKAddd
GC content	43.3%
Information content (bits; total / per base)	14.637 / 1.126
Data sources	ChIP-Seq + HT-SELEX
Aligned words	687

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	8 (52)	0.629	0.657	0.431	0.46	0.606	0.629	1.375	1.457	23.119	37.26
Mouse	9 (57)	0.754	0.862	0.608	0.749	0.739	0.845	2.068	2.872	74.509	135.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.747	0.719	0.662	0.642	0.601	0.594
Non-Methyl HT-SELEX, 2 experiments	best	0.807	0.784	0.702	0.683	0.627	0.622

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: 6.5.4.0.4
HGNC	HGNC:11604
MGI	MGI:102541
EntrezGene (human)	GeneID:6910 (SSTAR profile)
EntrezGene (mouse)	GeneID:21388 (SSTAR profile)
UniProt ID (human)	TBX5_HUMAN
UniProt ID (mouse)	TBX5_MOUSE
UniProt AC (human)	Q99593 (TFClass)
UniProt AC (mouse)	P70326 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	8 human, 9 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	TBX5.H12INVITRO.0.PS.A.pcm
PWM	TBX5.H12INVITRO.0.PS.A.pwm
PFM	TBX5.H12INVITRO.0.PS.A.pfm
Alignment	TBX5.H12INVITRO.0.PS.A.words.tsv
Threshold to P-value map	TBX5.H12INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	TBX5.H12INVITRO.0.PS.A_jaspar_format.txt
MEME format	TBX5.H12INVITRO.0.PS.A_meme_format.meme
Transfac format	TBX5.H12INVITRO.0.PS.A_transfac_format.txt
Homer format	TBX5.H12INVITRO.0.PS.A_homer_format_0.001.txt TBX5.H12INVITRO.0.PS.A_homer_format_0.0005.txt TBX5.H12INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	165.75	145.75	154.75	220.75
02	377.0	23.0	195.0	92.0
03	675.0	1.0	11.0	0.0
04	2.0	0.0	685.0	0.0
05	0.0	0.0	687.0	0.0
06	0.0	0.0	0.0	687.0
07	0.0	0.0	687.0	0.0
08	4.0	3.0	49.0	631.0
09	7.0	17.0	452.0	211.0
10	611.0	13.0	43.0	20.0
11	241.0	73.0	194.0	179.0
12	356.75	59.75	158.75	111.75
13	180.75	63.75	151.75	290.75

PFM

	A	C	G	T
01	0.241	0.212	0.225	0.321
02	0.549	0.033	0.284	0.134
03	0.983	0.001	0.016	0.0
04	0.003	0.0	0.997	0.0
05	0.0	0.0	1.0	0.0
06	0.0	0.0	0.0	1.0
07	0.0	0.0	1.0	0.0
08	0.006	0.004	0.071	0.918
09	0.01	0.025	0.658	0.307
10	0.889	0.019	0.063	0.029
11	0.351	0.106	0.282	0.261
12	0.519	0.087	0.231	0.163
13	0.263	0.093	0.221	0.423

PWM

	A	C	G	T
01	-0.035	-0.162	-0.103	0.249
02	0.781	-1.951	0.126	-0.616
03	1.362	-4.187	-2.619	-4.665
04	-3.865	-4.665	1.376	-4.665
05	-4.665	-4.665	1.379	-4.665
06	-4.665	-4.665	-4.665	1.379
07	-4.665	-4.665	1.379	-4.665
08	-3.427	-3.622	-1.231	1.294
09	-3.0	-2.231	0.962	0.204
10	1.262	-2.472	-1.357	-2.081
11	0.336	-0.843	0.121	0.041
12	0.726	-1.038	-0.078	-0.425
13	0.051	-0.975	-0.123	0.523

Standard thresholds

P-value	Threshold
0.001	2.390465
0.0005	3.80376
0.0001	6.593515