TBX21.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBX21.H12INVIVO.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	11
Consensus	vdRRGTGWKRv
GC content	50.59%
Information content (bits; total / per base)	9.816 / 0.892
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	177

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	0.835	0.591	0.712	0.73	0.816	2.135	2.738	90.553	127.444
Mouse	7 (44)	0.707	0.787	0.569	0.717	0.683	0.766	1.838	2.636	43.216	108.097

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.979	0.969	0.925	0.91	0.833	0.824
Overall, 6 experiments	best	0.997	0.996	0.988	0.984	0.928	0.911
Methyl HT-SELEX, 1 experiments	median	0.985	0.977	0.962	0.947	0.909	0.889
Methyl HT-SELEX, 1 experiments	best	0.985	0.977	0.962	0.947	0.909	0.889
Non-Methyl HT-SELEX, 5 experiments	median	0.972	0.962	0.888	0.873	0.757	0.759
Non-Methyl HT-SELEX, 5 experiments	best	0.997	0.996	0.988	0.984	0.928	0.911

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.153	6.011	0.275	0.131

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.62	0.118	0.537	0.349

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.H12INVIVO.0.PSM.A.pcm
PWM	TBX21.H12INVIVO.0.PSM.A.pwm
PFM	TBX21.H12INVIVO.0.PSM.A.pfm
Alignment	TBX21.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	TBX21.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	TBX21.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	TBX21.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	TBX21.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	TBX21.H12INVIVO.0.PSM.A_homer_format_0.001.txt TBX21.H12INVIVO.0.PSM.A_homer_format_0.0005.txt TBX21.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	60.0	22.0	80.0	15.0
02	65.0	21.0	60.0	31.0
03	106.0	14.0	37.0	20.0
04	33.0	5.0	128.0	11.0
05	1.0	3.0	171.0	2.0
06	1.0	0.0	5.0	171.0
07	0.0	0.0	174.0	3.0
08	19.0	5.0	15.0	138.0
09	1.0	27.0	118.0	31.0
10	139.0	8.0	18.0	12.0
11	82.0	26.0	48.0	21.0

PFM

	A	C	G	T
01	0.339	0.124	0.452	0.085
02	0.367	0.119	0.339	0.175
03	0.599	0.079	0.209	0.113
04	0.186	0.028	0.723	0.062
05	0.006	0.017	0.966	0.011
06	0.006	0.0	0.028	0.966
07	0.0	0.0	0.983	0.017
08	0.107	0.028	0.085	0.78
09	0.006	0.153	0.667	0.175
10	0.785	0.045	0.102	0.068
11	0.463	0.147	0.271	0.119

PWM

	A	C	G	T
01	0.297	-0.67	0.579	-1.028
02	0.375	-0.714	0.297	-0.344
03	0.857	-1.091	-0.173	-0.76
04	-0.284	-1.979	1.043	-1.31
05	-2.988	-2.361	1.331	-2.627
06	-2.988	-3.561	-1.979	1.331
07	-3.561	-3.561	1.348	-2.361
08	-0.808	-1.979	-1.028	1.118
09	-2.988	-0.476	0.963	-0.344
10	1.125	-1.589	-0.859	-1.231
11	0.604	-0.512	0.079	-0.714

Standard thresholds

P-value	Threshold
0.001	4.89028
0.0005	5.683665
0.0001	7.24342