TBR1.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TBR1.H12INVIVO.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	10
Consensus	dRdKTGTKAR
GC content	34.85%
Information content (bits; total / per base)	9.265 / 0.926
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1000

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)	0.786	0.84	0.669	0.741	0.746	0.766	2.097	2.164	78.828	90.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 4 experiments	median	0.753	0.738	0.691	0.679	0.619	0.619
Non-Methyl HT-SELEX, 4 experiments	best	0.996	0.991	0.974	0.966	0.883	0.879

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.H12INVIVO.0.PS.A.pcm
PWM	TBR1.H12INVIVO.0.PS.A.pwm
PFM	TBR1.H12INVIVO.0.PS.A.pfm
Alignment	TBR1.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	TBR1.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	TBR1.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	TBR1.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	TBR1.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	TBR1.H12INVIVO.0.PS.A_homer_format_0.001.txt TBR1.H12INVIVO.0.PS.A_homer_format_0.0005.txt TBR1.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	245.0	69.0	267.0	419.0
02	566.0	57.0	253.0	124.0
03	442.0	15.0	318.0	225.0
04	2.0	48.0	706.0	244.0
05	2.0	7.0	17.0	974.0
06	214.0	4.0	774.0	8.0
07	63.0	24.0	44.0	869.0
08	6.0	19.0	558.0	417.0
09	934.0	11.0	42.0	13.0
10	693.0	44.0	208.0	55.0

PFM

	A	C	G	T
01	0.245	0.069	0.267	0.419
02	0.566	0.057	0.253	0.124
03	0.442	0.015	0.318	0.225
04	0.002	0.048	0.706	0.244
05	0.002	0.007	0.017	0.974
06	0.214	0.004	0.774	0.008
07	0.063	0.024	0.044	0.869
08	0.006	0.019	0.558	0.417
09	0.934	0.011	0.042	0.013
10	0.693	0.044	0.208	0.055

PWM

	A	C	G	T
01	-0.02	-1.27	0.065	0.514
02	0.813	-1.455	0.012	-0.694
03	0.567	-2.711	0.239	-0.105
04	-4.213	-1.622	1.034	-0.024
05	-4.213	-3.362	-2.598	1.355
06	-0.154	-3.783	1.125	-3.253
07	-1.358	-2.281	-1.706	1.241
08	-3.484	-2.497	0.799	0.509
09	1.313	-2.985	-1.75	-2.839
10	1.015	-1.706	-0.183	-1.49

Standard thresholds

P-value	Threshold
0.001	4.926035
0.0005	5.73739
0.0001	7.407405