TBX6.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX6.H12INVIVO.0.PSM.A
Gene (human)	TBX6 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tbx6
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	dRGGTGhbAR
GC content	52.01%
Information content (bits; total / per base)	9.458 / 0.946
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	996

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 (7)	0.933	0.942	0.866	0.877	0.885	0.891	3.05	3.098	268.77	306.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.986	0.976	0.978	0.964	0.96	0.941
Overall, 2 experiments	best	0.989	0.98	0.982	0.971	0.967	0.951
Methyl HT-SELEX, 1 experiments	median	0.984	0.971	0.973	0.957	0.952	0.931
Methyl HT-SELEX, 1 experiments	best	0.984	0.971	0.973	0.957	0.952	0.931
Non-Methyl HT-SELEX, 1 experiments	median	0.989	0.98	0.982	0.971	0.967	0.951
Non-Methyl HT-SELEX, 1 experiments	best	0.989	0.98	0.982	0.971	0.967	0.951

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	T-Box factors {6.5} (TFClass)
TF family	TBX6-related {6.5.5} (TFClass)
TF subfamily	{6.5.5.0} (TFClass)
TFClass ID	TFClass: 6.5.5.0.1
HGNC	HGNC:11605
MGI	MGI:102539
EntrezGene (human)	GeneID:6911 (SSTAR profile)
EntrezGene (mouse)	GeneID:21389 (SSTAR profile)
UniProt ID (human)	TBX6_HUMAN
UniProt ID (mouse)	TBX6_MOUSE
UniProt AC (human)	O95947 (TFClass)
UniProt AC (mouse)	P70327 (TFClass)
GRECO-DB-TF	yes

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

PCM	TBX6.H12INVIVO.0.PSM.A.pcm
PWM	TBX6.H12INVIVO.0.PSM.A.pwm
PFM	TBX6.H12INVIVO.0.PSM.A.pfm
Alignment	TBX6.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	TBX6.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	TBX6.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	TBX6.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	TBX6.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	TBX6.H12INVIVO.0.PSM.A_homer_format_0.001.txt TBX6.H12INVIVO.0.PSM.A_homer_format_0.0005.txt TBX6.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	327.0	125.0	409.0	135.0
02	748.0	11.0	170.0	67.0
03	109.0	22.0	853.0	12.0
04	10.0	50.0	919.0	17.0
05	37.0	35.0	13.0	911.0
06	3.0	2.0	981.0	10.0
07	118.0	414.0	116.0	348.0
08	57.0	359.0	279.0	301.0
09	856.0	10.0	117.0	13.0
10	632.0	78.0	217.0	69.0

PFM

	A	C	G	T
01	0.328	0.126	0.411	0.136
02	0.751	0.011	0.171	0.067
03	0.109	0.022	0.856	0.012
04	0.01	0.05	0.923	0.017
05	0.037	0.035	0.013	0.915
06	0.003	0.002	0.985	0.01
07	0.118	0.416	0.116	0.349
08	0.057	0.36	0.28	0.302
09	0.859	0.01	0.117	0.013
10	0.635	0.078	0.218	0.069

PWM

	A	C	G	T
01	0.271	-0.682	0.494	-0.606
02	1.095	-2.981	-0.378	-1.294
03	-0.817	-2.358	1.226	-2.905
04	-3.063	-1.578	1.301	-2.594
05	-1.868	-1.921	-2.835	1.292
06	-3.971	-4.209	1.366	-3.063
07	-0.739	0.506	-0.756	0.333
08	-1.451	0.364	0.113	0.188
09	1.23	-3.063	-0.748	-2.835
10	0.927	-1.146	-0.137	-1.266

Standard thresholds

P-value	Threshold
0.001	4.885185
0.0005	5.6714
0.0001	7.358855