TBX21.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX21.H12INVITRO.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	14
Consensus	ndAGGTGTGAWddn
GC content	43.28%
Information content (bits; total / per base)	15.292 / 1.092
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9969

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	0.827	0.602	0.719	0.731	0.822	2.171	2.836	92.377	139.42
Mouse	7 (44)	0.682	0.776	0.542	0.706	0.648	0.748	1.7	2.697	37.724	102.187

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.987	0.98	0.949	0.938	0.861	0.861
Overall, 6 experiments	best	0.999	0.998	0.995	0.994	0.95	0.936
Methyl HT-SELEX, 1 experiments	median	0.991	0.986	0.979	0.97	0.947	0.932
Methyl HT-SELEX, 1 experiments	best	0.991	0.986	0.979	0.97	0.947	0.932
Non-Methyl HT-SELEX, 5 experiments	median	0.987	0.979	0.921	0.91	0.786	0.79
Non-Methyl HT-SELEX, 5 experiments	best	0.999	0.998	0.995	0.994	0.95	0.936

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.856	5.254	0.308	0.146

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.644	0.143	0.529	0.34

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.H12INVITRO.0.PSM.A.pcm
PWM	TBX21.H12INVITRO.0.PSM.A.pwm
PFM	TBX21.H12INVITRO.0.PSM.A.pfm
Alignment	TBX21.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	TBX21.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	TBX21.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	TBX21.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	TBX21.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	TBX21.H12INVITRO.0.PSM.A_homer_format_0.001.txt TBX21.H12INVITRO.0.PSM.A_homer_format_0.0005.txt TBX21.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3080.25	2075.25	2395.25	2418.25
02	4235.25	751.25	2731.25	2251.25
03	9271.0	34.0	543.0	121.0
04	242.0	100.0	9516.0	111.0
05	0.0	1.0	9965.0	3.0
06	0.0	31.0	0.0	9938.0
07	0.0	0.0	9969.0	0.0
08	70.0	465.0	8.0	9426.0
09	27.0	142.0	9008.0	792.0
10	9834.0	20.0	86.0	29.0
11	6201.0	1061.0	624.0	2083.0
12	3924.0	1621.0	1820.0	2604.0
13	2212.75	1301.75	1337.75	5116.75
14	2100.75	2816.75	1984.75	3066.75

PFM

	A	C	G	T
01	0.309	0.208	0.24	0.243
02	0.425	0.075	0.274	0.226
03	0.93	0.003	0.054	0.012
04	0.024	0.01	0.955	0.011
05	0.0	0.0	1.0	0.0
06	0.0	0.003	0.0	0.997
07	0.0	0.0	1.0	0.0
08	0.007	0.047	0.001	0.946
09	0.003	0.014	0.904	0.079
10	0.986	0.002	0.009	0.003
11	0.622	0.106	0.063	0.209
12	0.394	0.163	0.183	0.261
13	0.222	0.131	0.134	0.513
14	0.211	0.283	0.199	0.308

PWM

	A	C	G	T
01	0.212	-0.183	-0.04	-0.03
02	0.53	-1.197	0.091	-0.102
03	1.313	-4.23	-1.521	-3.007
04	-2.323	-3.194	1.339	-3.092
05	-6.988	-6.627	1.385	-6.154
06	-6.988	-4.316	-6.988	1.382
07	-6.988	-6.988	1.386	-6.988
08	-3.541	-1.675	-5.49	1.33
09	-4.444	-2.85	1.284	-1.144
10	1.372	-4.717	-3.341	-4.378
11	0.911	-0.853	-1.382	-0.179
12	0.454	-0.43	-0.314	0.044
13	-0.119	-0.649	-0.621	0.719
14	-0.171	0.122	-0.227	0.207

Standard thresholds

P-value	Threshold
0.001	1.35871
0.0005	2.92836
0.0001	6.15761