HXB7.H12INVIVO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXB7.H12INVIVO.1.SM.B
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	1
Quality	B

Motif length	13
Consensus	nMRTTAATTAvbn
GC content	33.01%
Information content (bits; total / per base)	14.427 / 1.11
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	319

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)	0.473	0.513	0.317	0.333	0.446	0.471	0.879	0.942	0	1.553

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.851	0.806	0.788	0.752	0.72	0.699
Overall, 4 experiments	best	0.966	0.946	0.938	0.91	0.868	0.842
Methyl HT-SELEX, 2 experiments	median	0.856	0.822	0.795	0.769	0.725	0.712
Methyl HT-SELEX, 2 experiments	best	0.966	0.946	0.938	0.91	0.868	0.842
Non-Methyl HT-SELEX, 2 experiments	median	0.851	0.806	0.788	0.752	0.72	0.699
Non-Methyl HT-SELEX, 2 experiments	best	0.933	0.894	0.905	0.86	0.848	0.806

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.1.SM.B.pcm
PWM	HXB7.H12INVIVO.1.SM.B.pwm
PFM	HXB7.H12INVIVO.1.SM.B.pfm
Alignment	HXB7.H12INVIVO.1.SM.B.words.tsv
Threshold to P-value map	HXB7.H12INVIVO.1.SM.B.thr
Motif in other formats
JASPAR format	HXB7.H12INVIVO.1.SM.B_jaspar_format.txt
MEME format	HXB7.H12INVIVO.1.SM.B_meme_format.meme
Transfac format	HXB7.H12INVIVO.1.SM.B_transfac_format.txt
Homer format	HXB7.H12INVIVO.1.SM.B_homer_format_0.001.txt HXB7.H12INVIVO.1.SM.B_homer_format_0.0005.txt HXB7.H12INVIVO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	83.25	101.25	41.25	93.25
02	48.75	239.75	20.75	9.75
03	197.0	40.0	79.0	3.0
04	0.0	40.0	7.0	272.0
05	0.0	0.0	0.0	319.0
06	319.0	0.0	0.0	0.0
07	319.0	0.0	0.0	0.0
08	0.0	0.0	0.0	319.0
09	0.0	0.0	79.0	240.0
10	256.0	0.0	61.0	2.0
11	33.0	241.0	33.0	12.0
12	27.25	142.25	102.25	47.25
13	68.25	78.25	63.25	109.25

PFM

	A	C	G	T
01	0.261	0.317	0.129	0.292
02	0.153	0.752	0.065	0.031
03	0.618	0.125	0.248	0.009
04	0.0	0.125	0.022	0.853
05	0.0	0.0	0.0	1.0
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.0	0.248	0.752
10	0.803	0.0	0.191	0.006
11	0.103	0.755	0.103	0.038
12	0.085	0.446	0.321	0.148
13	0.214	0.245	0.198	0.342

PWM

	A	C	G	T
01	0.042	0.235	-0.643	0.154
02	-0.481	1.089	-1.297	-1.982
03	0.894	-0.673	-0.009	-2.906
04	-4.031	-0.673	-2.264	1.214
05	-4.031	-4.031	-4.031	1.373
06	1.373	-4.031	-4.031	-4.031
07	1.373	-4.031	-4.031	-4.031
08	-4.031	-4.031	-4.031	1.373
09	-4.031	-4.031	-0.009	1.09
10	1.154	-4.031	-0.263	-3.161
11	-0.858	1.094	-0.858	-1.798
12	-1.04	0.571	0.245	-0.511
13	-0.153	-0.019	-0.227	0.31

Standard thresholds

P-value	Threshold
0.001	3.034975
0.0005	4.27042
0.0001	6.915865