PBX2.H14RSNP.2.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PBX2.H14RSNP.2.P.C
Gene (human)	PBX2 (GeneCards)
Gene synonyms (human)	G17
Gene (mouse)	Pbx2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	C

Motif length	8
Consensus	bWGACAGv
GC content	56.78%
Information content (bits; total / per base)	10.749 / 1.344
Data sources	ChIP-Seq
Aligned words	1000
Previous names	PBX2.H12RSNP.2.P.C

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	3 (21)	0.68	0.694	0.505	0.531	0.696	0.725	1.846	1.985	94.244	138.161

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.602	0.02	0.663	0.359

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	TALE-type HD {3.1.4} (TFClass)
TF subfamily	PBX {3.1.4.4} (TFClass)
TFClass ID	TFClass: 3.1.4.4.2
HGNC	HGNC:8633
MGI	MGI:1341793
EntrezGene (human)	GeneID:5089 (SSTAR profile)
EntrezGene (mouse)	GeneID:18515 (SSTAR profile)
UniProt ID (human)	PBX2_HUMAN
UniProt ID (mouse)	PBX2_MOUSE
UniProt AC (human)	P40425 (TFClass)
UniProt AC (mouse)	O35984 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	3 human, 0 mouse
HT-SELEX	0
Methyl-HT-SELEX	0
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	PBX2.H14RSNP.2.P.C.pcm
PWM	PBX2.H14RSNP.2.P.C.pwm
PFM	PBX2.H14RSNP.2.P.C.pfm
Threshold to P-value map	PBX2.H14RSNP.2.P.C.thr
Motif in other formats
JASPAR format	PBX2.H14RSNP.2.P.C_jaspar_format.txt
MEME format	PBX2.H14RSNP.2.P.C_meme_format.meme
Transfac format	PBX2.H14RSNP.2.P.C_transfac_format.txt
Homer format	PBX2.H14RSNP.2.P.C_homer_format_0.001.txt PBX2.H14RSNP.2.P.C_homer_format_0.0005.txt PBX2.H14RSNP.2.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	80.0	325.0	514.0	81.0
02	262.0	21.0	72.0	645.0
03	3.0	1.0	994.0	2.0
04	986.0	3.0	8.0	3.0
05	1.0	992.0	5.0	2.0
06	974.0	2.0	9.0	15.0
07	10.0	1.0	987.0	2.0
08	347.0	239.0	369.0	45.0

PFM

	A	C	G	T
01	0.08	0.325	0.514	0.081
02	0.262	0.021	0.072	0.645
03	0.003	0.001	0.994	0.002
04	0.986	0.003	0.008	0.003
05	0.001	0.992	0.005	0.002
06	0.974	0.002	0.009	0.015
07	0.01	0.001	0.987	0.002
08	0.347	0.239	0.369	0.045

PWM

	A	C	G	T
01	-1.125	0.261	0.717	-1.113
02	0.047	-2.405	-1.228	0.944
03	-3.975	-4.525	1.375	-4.213
04	1.367	-3.975	-3.253	-3.975
05	-4.525	1.373	-3.622	-4.213
06	1.355	-4.213	-3.156	-2.711
07	-3.066	-4.525	1.368	-4.213
08	0.326	-0.045	0.387	-1.684

Standard thresholds

P-value	Threshold
0.001	3.94246
0.0005	5.636425
0.0001	7.962495