TBR1.H12CORE.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBR1.H12CORE.0.PS.A
Gene (human)	TBR1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tbr1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	18
Consensus	hbnnnvRAGGTGTGAAdd
GC content	46.67%
Information content (bits; total / per base)	17.33 / 0.963
Data sources	ChIP-Seq + HT-SELEX
Aligned words	455

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	2 (14)	0.626	0.654	0.527	0.555	0.637	0.658	1.831	1.925	44.639	55.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 4 experiments	median	0.789	0.779	0.743	0.733	0.661	0.663
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.999	0.996	0.995	0.945	0.944

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: 6.5.2.0.1
HGNC	HGNC:11590
MGI	MGI:107404
EntrezGene (human)	GeneID:10716 (SSTAR profile)
EntrezGene (mouse)	GeneID:21375 (SSTAR profile)
UniProt ID (human)	TBR1_HUMAN
UniProt ID (mouse)	TBR1_MOUSE
UniProt AC (human)	Q16650 (TFClass)
UniProt AC (mouse)	Q64336 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	4
Methyl-HT-SELEX	0

PCM	TBR1.H12CORE.0.PS.A.pcm
PWM	TBR1.H12CORE.0.PS.A.pwm
PFM	TBR1.H12CORE.0.PS.A.pfm
Alignment	TBR1.H12CORE.0.PS.A.words.tsv
Threshold to P-value map	TBR1.H12CORE.0.PS.A.thr
Motif in other formats
JASPAR format	TBR1.H12CORE.0.PS.A_jaspar_format.txt
MEME format	TBR1.H12CORE.0.PS.A_meme_format.meme
Transfac format	TBR1.H12CORE.0.PS.A_transfac_format.txt
Homer format	TBR1.H12CORE.0.PS.A_homer_format_0.001.txt TBR1.H12CORE.0.PS.A_homer_format_0.0005.txt TBR1.H12CORE.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	86.5	216.5	64.5	87.5
02	67.5	206.5	68.5	112.5
03	75.0	153.0	83.0	144.0
04	81.0	115.0	119.0	140.0
05	91.0	117.0	134.0	113.0
06	173.0	93.0	123.0	66.0
07	255.0	25.0	128.0	47.0
08	443.0	0.0	11.0	1.0
09	2.0	1.0	446.0	6.0
10	0.0	0.0	455.0	0.0
11	0.0	0.0	0.0	455.0
12	0.0	0.0	455.0	0.0
13	0.0	8.0	0.0	447.0
14	0.0	11.0	427.0	17.0
15	446.0	4.0	3.0	2.0
16	373.0	15.0	35.0	32.0
17	238.5	62.5	81.5	72.5
18	175.0	69.0	92.0	119.0

PFM

	A	C	G	T
01	0.19	0.476	0.142	0.192
02	0.148	0.454	0.151	0.247
03	0.165	0.336	0.182	0.316
04	0.178	0.253	0.262	0.308
05	0.2	0.257	0.295	0.248
06	0.38	0.204	0.27	0.145
07	0.56	0.055	0.281	0.103
08	0.974	0.0	0.024	0.002
09	0.004	0.002	0.98	0.013
10	0.0	0.0	1.0	0.0
11	0.0	0.0	0.0	1.0
12	0.0	0.0	1.0	0.0
13	0.0	0.018	0.0	0.982
14	0.0	0.024	0.938	0.037
15	0.98	0.009	0.007	0.004
16	0.82	0.033	0.077	0.07
17	0.524	0.137	0.179	0.159
18	0.385	0.152	0.202	0.262

PWM

	A	C	G	T
01	-0.27	0.637	-0.557	-0.258
02	-0.513	0.59	-0.498	-0.011
03	-0.41	0.293	-0.31	0.233
04	-0.334	0.011	0.045	0.205
05	-0.22	0.028	0.162	-0.007
06	0.415	-0.198	0.077	-0.535
07	0.8	-1.469	0.117	-0.865
08	1.35	-4.322	-2.219	-3.819
09	-3.486	-3.819	1.356	-2.728
10	-4.322	-4.322	1.376	-4.322
11	-4.322	-4.322	-4.322	1.376
12	-4.322	-4.322	1.376	-4.322
13	-4.322	-2.493	-4.322	1.359
14	-4.322	-2.219	1.313	-1.828
15	1.356	-3.037	-3.237	-3.486
16	1.178	-1.942	-1.149	-1.235
17	0.733	-0.588	-0.328	-0.443
18	0.426	-0.491	-0.209	0.045

Standard thresholds

P-value	Threshold
0.001	1.22316
0.0005	2.65546
0.0001	5.66711