TBX21.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX21.H12RSNP.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	dAGGTGTGAhndn
GC content	44.2%
Information content (bits; total / per base)	13.525 / 1.04
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	8757

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)	0.744	0.829	0.604	0.723	0.733	0.819	2.166	2.813	97.357	150.481
Mouse	7 (44)	0.684	0.78	0.541	0.71	0.654	0.75	1.711	2.692	42.732	102.824

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.987	0.979	0.949	0.937	0.863	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	0.987	0.978	0.922	0.911	0.789	0.792
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
#	2.903	5.451	0.314	0.147

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.629	0.147	0.561	0.391

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.H12RSNP.0.PSM.A.pcm
PWM	TBX21.H12RSNP.0.PSM.A.pwm
PFM	TBX21.H12RSNP.0.PSM.A.pfm
Alignment	TBX21.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	TBX21.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	TBX21.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	TBX21.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	TBX21.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	TBX21.H12RSNP.0.PSM.A_homer_format_0.001.txt TBX21.H12RSNP.0.PSM.A_homer_format_0.0005.txt TBX21.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3018.75	1044.75	2508.75	2184.75
02	7662.75	96.75	741.75	255.75
03	400.0	252.0	7886.0	219.0
04	3.0	7.0	8745.0	2.0
05	0.0	92.0	18.0	8647.0
06	1.0	0.0	8755.0	1.0
07	169.0	534.0	39.0	8015.0
08	99.0	328.0	7102.0	1228.0
09	8331.0	47.0	250.0	129.0
10	4723.0	990.0	960.0	2084.0
11	3102.0	1473.0	1842.0	2340.0
12	1906.0	1200.0	1271.0	4380.0
13	1841.0	2148.0	1989.0	2779.0

PFM

	A	C	G	T
01	0.345	0.119	0.286	0.249
02	0.875	0.011	0.085	0.029
03	0.046	0.029	0.901	0.025
04	0.0	0.001	0.999	0.0
05	0.0	0.011	0.002	0.987
06	0.0	0.0	1.0	0.0
07	0.019	0.061	0.004	0.915
08	0.011	0.037	0.811	0.14
09	0.951	0.005	0.029	0.015
10	0.539	0.113	0.11	0.238
11	0.354	0.168	0.21	0.267
12	0.218	0.137	0.145	0.5
13	0.21	0.245	0.227	0.317

PWM

	A	C	G	T
01	0.321	-0.739	0.136	-0.002
02	1.252	-3.097	-1.08	-2.139
03	-1.695	-2.154	1.281	-2.293
04	-6.03	-5.466	1.384	-6.241
05	-6.873	-3.146	-4.683	1.373
06	-6.508	-6.873	1.385	-6.508
07	-2.549	-1.408	-3.972	1.297
08	-3.075	-1.892	1.176	-0.577
09	1.336	-3.795	-2.162	-2.815
10	0.768	-0.792	-0.823	-0.049
11	0.348	-0.396	-0.173	0.067
12	-0.138	-0.6	-0.543	0.693
13	-0.173	-0.019	-0.096	0.238

Standard thresholds

P-value	Threshold
0.001	3.11176
0.0005	4.37801
0.0001	6.97058