HXB7.H12INVIVO.0.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXB7.H12INVIVO.0.P.C
Gene (human)	HOXB7 (GeneCards)
Gene synonyms (human)	HOX2C
Gene (mouse)	Hoxb7
Gene synonyms (mouse)	Hox-2.3, Hoxb-7
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	C

Motif length	14
Consensus	vTGATKSATKRbhn
GC content	40.58%
Information content (bits; total / per base)	11.71 / 0.836
Data sources	ChIP-Seq
Aligned words	210

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	1 (7)	0.766	0.882	0.762	0.852	0.759	0.854	3.417	3.915	36.076	95.125

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.524	0.513	0.525	0.513	0.518	0.511
Overall, 4 experiments	best	0.591	0.555	0.578	0.547	0.56	0.538
Methyl HT-SELEX, 2 experiments	median	0.522	0.513	0.52	0.511	0.514	0.509
Methyl HT-SELEX, 2 experiments	best	0.555	0.531	0.549	0.528	0.536	0.522
Non-Methyl HT-SELEX, 2 experiments	median	0.541	0.524	0.539	0.522	0.53	0.519
Non-Methyl HT-SELEX, 2 experiments	best	0.591	0.555	0.578	0.547	0.56	0.538

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HOX-related {3.1.1} (TFClass)
TF subfamily	HOX6-7 {3.1.1.6} (TFClass)
TFClass ID	TFClass: 3.1.1.6.5
HGNC	HGNC:5118
MGI	MGI:96188
EntrezGene (human)	GeneID:3217 (SSTAR profile)
EntrezGene (mouse)	GeneID:15415 (SSTAR profile)
UniProt ID (human)	HXB7_HUMAN
UniProt ID (mouse)	HXB7_MOUSE
UniProt AC (human)	P09629 (TFClass)
UniProt AC (mouse)	P09024 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 0 mouse
HT-SELEX	2
Methyl-HT-SELEX	2

PCM	HXB7.H12INVIVO.0.P.C.pcm
PWM	HXB7.H12INVIVO.0.P.C.pwm
PFM	HXB7.H12INVIVO.0.P.C.pfm
Alignment	HXB7.H12INVIVO.0.P.C.words.tsv
Threshold to P-value map	HXB7.H12INVIVO.0.P.C.thr
Motif in other formats
JASPAR format	HXB7.H12INVIVO.0.P.C_jaspar_format.txt
MEME format	HXB7.H12INVIVO.0.P.C_meme_format.meme
Transfac format	HXB7.H12INVIVO.0.P.C_transfac_format.txt
Homer format	HXB7.H12INVIVO.0.P.C_homer_format_0.001.txt HXB7.H12INVIVO.0.P.C_homer_format_0.0005.txt HXB7.H12INVIVO.0.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	110.0	27.0	48.0	25.0
02	30.0	3.0	12.0	165.0
03	10.0	2.0	195.0	3.0
04	198.0	4.0	3.0	5.0
05	4.0	20.0	5.0	181.0
06	17.0	4.0	55.0	134.0
07	4.0	41.0	150.0	15.0
08	194.0	7.0	8.0	1.0
09	1.0	0.0	12.0	197.0
10	24.0	10.0	116.0	60.0
11	57.0	7.0	119.0	27.0
12	20.0	101.0	63.0	26.0
13	39.0	66.0	29.0	76.0
14	37.0	43.0	43.0	87.0

PFM

	A	C	G	T
01	0.524	0.129	0.229	0.119
02	0.143	0.014	0.057	0.786
03	0.048	0.01	0.929	0.014
04	0.943	0.019	0.014	0.024
05	0.019	0.095	0.024	0.862
06	0.081	0.019	0.262	0.638
07	0.019	0.195	0.714	0.071
08	0.924	0.033	0.038	0.005
09	0.005	0.0	0.057	0.938
10	0.114	0.048	0.552	0.286
11	0.271	0.033	0.567	0.129
12	0.095	0.481	0.3	0.124
13	0.186	0.314	0.138	0.362
14	0.176	0.205	0.205	0.414

PWM

	A	C	G	T
01	0.727	-0.642	-0.087	-0.715
02	-0.541	-2.519	-1.395	1.128
03	-1.558	-2.781	1.294	-2.519
04	1.309	-2.311	-2.519	-2.14
05	-2.311	-0.926	-2.14	1.22
06	-1.077	-2.311	0.045	0.922
07	-2.311	-0.24	1.034	-1.193
08	1.289	-1.865	-1.752	-3.137
09	-3.137	-3.696	-1.395	1.304
10	-0.754	-1.558	0.779	0.13
11	0.08	-1.865	0.804	-0.642
12	-0.926	0.642	0.178	-0.678
13	-0.289	0.224	-0.574	0.362
14	-0.34	-0.194	-0.194	0.495

Standard thresholds

P-value	Threshold
0.001	4.42631
0.0005	5.32056
0.0001	7.18261