TBX21.H12CORE.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX21.H12CORE.0.PSM.A
Gene (human)	TBX21 (GeneCards)
Gene synonyms (human)	TBET, TBLYM
Gene (mouse)	Tbx21
Gene synonyms (mouse)	Tbet, Tblym
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	13
Consensus	nAGGTGTKAdndn
GC content	45.04%
Information content (bits; total / per base)	12.525 / 0.963
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9979

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	5 (35)	0.747	0.831	0.607	0.726	0.733	0.82	2.162	2.813	98.959	144.444
Mouse	7 (44)	0.687	0.782	0.544	0.709	0.655	0.75	1.713	2.684	41.113	108.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.987	0.979	0.949	0.937	0.864	0.862
Overall, 6 experiments	best	0.999	0.998	0.995	0.994	0.949	0.937
Methyl HT-SELEX, 1 experiments	median	0.991	0.985	0.979	0.969	0.947	0.931
Methyl HT-SELEX, 1 experiments	best	0.991	0.985	0.979	0.969	0.947	0.931
Non-Methyl HT-SELEX, 5 experiments	median	0.986	0.977	0.922	0.911	0.79	0.793
Non-Methyl HT-SELEX, 5 experiments	best	0.999	0.998	0.995	0.994	0.949	0.937

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.879	5.438	0.316	0.148

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.62	0.135	0.559	0.382

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	T-Box factors {6.5} (TFClass)
TF family	TBrain-related {6.5.2} (TFClass)
TF subfamily	{6.5.2.0} (TFClass)
TFClass ID	TFClass: 6.5.2.0.3
HGNC	HGNC:11599
MGI	MGI:1888984
EntrezGene (human)	GeneID:30009 (SSTAR profile)
EntrezGene (mouse)	GeneID:57765 (SSTAR profile)
UniProt ID (human)	TBX21_HUMAN
UniProt ID (mouse)	TBX21_MOUSE
UniProt AC (human)	Q9UL17 (TFClass)
UniProt AC (mouse)	Q9JKD8 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	5 human, 7 mouse
HT-SELEX	5
Methyl-HT-SELEX	1

PCM	TBX21.H12CORE.0.PSM.A.pcm
PWM	TBX21.H12CORE.0.PSM.A.pwm
PFM	TBX21.H12CORE.0.PSM.A.pfm
Alignment	TBX21.H12CORE.0.PSM.A.words.tsv
Threshold to P-value map	TBX21.H12CORE.0.PSM.A.thr
Motif in other formats
JASPAR format	TBX21.H12CORE.0.PSM.A_jaspar_format.txt
MEME format	TBX21.H12CORE.0.PSM.A_meme_format.meme
Transfac format	TBX21.H12CORE.0.PSM.A_transfac_format.txt
Homer format	TBX21.H12CORE.0.PSM.A_homer_format_0.001.txt TBX21.H12CORE.0.PSM.A_homer_format_0.0005.txt TBX21.H12CORE.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3388.5	1257.5	2879.5	2453.5
02	8427.5	167.5	998.5	385.5
03	556.0	396.0	8704.0	323.0
04	9.0	26.0	9924.0	20.0
05	0.0	212.0	26.0	9741.0
06	2.0	0.0	9976.0	1.0
07	351.0	731.0	68.0	8829.0
08	230.0	499.0	7643.0	1607.0
09	9135.0	112.0	458.0	274.0
10	5081.0	1258.0	1296.0	2344.0
11	3380.0	1722.0	2244.0	2633.0
12	2162.75	1450.75	1591.75	4773.75
13	2109.5	2409.5	2374.5	3085.5

PFM

	A	C	G	T
01	0.34	0.126	0.289	0.246
02	0.845	0.017	0.1	0.039
03	0.056	0.04	0.872	0.032
04	0.001	0.003	0.994	0.002
05	0.0	0.021	0.003	0.976
06	0.0	0.0	1.0	0.0
07	0.035	0.073	0.007	0.885
08	0.023	0.05	0.766	0.161
09	0.915	0.011	0.046	0.027
10	0.509	0.126	0.13	0.235
11	0.339	0.173	0.225	0.264
12	0.217	0.145	0.16	0.478
13	0.211	0.241	0.238	0.309

PWM

	A	C	G	T
01	0.306	-0.684	0.143	-0.017
02	1.217	-2.688	-0.914	-1.862
03	-1.498	-1.836	1.249	-2.038
04	-5.398	-4.48	1.38	-4.718
05	-6.989	-2.455	-4.48	1.361
06	-6.364	-6.989	1.385	-6.628
07	-1.956	-1.225	-3.57	1.263
08	-2.375	-1.606	1.119	-0.439
09	1.297	-3.084	-1.691	-2.201
10	0.711	-0.684	-0.654	-0.062
11	0.303	-0.37	-0.106	0.054
12	-0.143	-0.541	-0.449	0.649
13	-0.168	-0.035	-0.049	0.212

Standard thresholds

P-value	Threshold
0.001	3.79336
0.0005	4.89761
0.0001	7.19646