TBX6.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX6.H12INVITRO.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	12
Consensus	ndAGGTGTbAhn
GC content	46.32%
Information content (bits; total / per base)	12.542 / 1.045
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9041

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)	0.897	0.908	0.805	0.817	0.866	0.872	2.939	2.978	217.009	248.032

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.992	0.986	0.987	0.979	0.978	0.966
Overall, 2 experiments	best	0.993	0.988	0.988	0.981	0.979	0.967
Methyl HT-SELEX, 1 experiments	median	0.991	0.985	0.986	0.977	0.979	0.967
Methyl HT-SELEX, 1 experiments	best	0.991	0.985	0.986	0.977	0.979	0.967
Non-Methyl HT-SELEX, 1 experiments	median	0.993	0.988	0.988	0.981	0.976	0.966
Non-Methyl HT-SELEX, 1 experiments	best	0.993	0.988	0.988	0.981	0.976	0.966

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.H12INVITRO.0.PSM.A.pcm
PWM	TBX6.H12INVITRO.0.PSM.A.pwm
PFM	TBX6.H12INVITRO.0.PSM.A.pfm
Alignment	TBX6.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	TBX6.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	TBX6.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	TBX6.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	TBX6.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	TBX6.H12INVITRO.0.PSM.A_homer_format_0.001.txt TBX6.H12INVITRO.0.PSM.A_homer_format_0.0005.txt TBX6.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1948.5	1986.5	2307.5	2798.5
02	3633.75	707.75	2492.75	2206.75
03	8431.0	62.0	420.0	128.0
04	64.0	150.0	8824.0	3.0
05	0.0	0.0	9041.0	0.0
06	0.0	333.0	0.0	8708.0
07	0.0	0.0	9041.0	0.0
08	423.0	821.0	12.0	7785.0
09	214.0	2118.0	4162.0	2547.0
10	7837.0	37.0	1035.0	132.0
11	4319.5	1533.5	1484.5	1703.5
12	3144.5	1424.5	2255.5	2216.5

PFM

	A	C	G	T
01	0.216	0.22	0.255	0.31
02	0.402	0.078	0.276	0.244
03	0.933	0.007	0.046	0.014
04	0.007	0.017	0.976	0.0
05	0.0	0.0	1.0	0.0
06	0.0	0.037	0.0	0.963
07	0.0	0.0	1.0	0.0
08	0.047	0.091	0.001	0.861
09	0.024	0.234	0.46	0.282
10	0.867	0.004	0.114	0.015
11	0.478	0.17	0.164	0.188
12	0.348	0.158	0.249	0.245

PWM

	A	C	G	T
01	-0.148	-0.129	0.021	0.213
02	0.474	-1.159	0.098	-0.024
03	1.316	-3.561	-1.679	-2.855
04	-3.53	-2.699	1.361	-6.061
05	-6.901	-6.901	1.386	-6.901
06	-6.901	-1.909	-6.901	1.348
07	-6.901	-6.901	1.386	-6.901
08	-1.671	-1.011	-5.066	1.236
09	-2.348	-0.065	0.61	0.119
10	1.243	-4.054	-0.78	-2.824
11	0.647	-0.387	-0.42	-0.282
12	0.33	-0.461	-0.002	-0.02

Standard thresholds

P-value	Threshold
0.001	3.37561
0.0005	4.75069
0.0001	7.256635