HXB7.H12RSNP.0.P.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXB7.H12RSNP.0.P.D
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	D

Motif length	14
Consensus	vTGATKSATKRnhb
GC content	40.03%
Information content (bits; total / per base)	11.861 / 0.847
Data sources	ChIP-Seq
Aligned words	205

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	0.874	0.76	0.846	0.76	0.85	3.444	3.926	34.509	88.602

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.535	0.519	0.533	0.518	0.524	0.515
Overall, 4 experiments	best	0.604	0.563	0.589	0.554	0.569	0.544
Methyl HT-SELEX, 2 experiments	median	0.533	0.519	0.529	0.517	0.521	0.513
Methyl HT-SELEX, 2 experiments	best	0.573	0.542	0.563	0.537	0.546	0.529
Non-Methyl HT-SELEX, 2 experiments	median	0.551	0.53	0.546	0.527	0.536	0.522
Non-Methyl HT-SELEX, 2 experiments	best	0.604	0.563	0.589	0.554	0.569	0.544

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.H12RSNP.0.P.D.pcm
PWM	HXB7.H12RSNP.0.P.D.pwm
PFM	HXB7.H12RSNP.0.P.D.pfm
Alignment	HXB7.H12RSNP.0.P.D.words.tsv
Threshold to P-value map	HXB7.H12RSNP.0.P.D.thr
Motif in other formats
JASPAR format	HXB7.H12RSNP.0.P.D_jaspar_format.txt
MEME format	HXB7.H12RSNP.0.P.D_meme_format.meme
Transfac format	HXB7.H12RSNP.0.P.D_transfac_format.txt
Homer format	HXB7.H12RSNP.0.P.D_homer_format_0.001.txt HXB7.H12RSNP.0.P.D_homer_format_0.0005.txt HXB7.H12RSNP.0.P.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	106.0	28.0	44.0	27.0
02	27.0	2.0	11.0	165.0
03	12.0	3.0	186.0	4.0
04	196.0	1.0	4.0	4.0
05	5.0	20.0	7.0	173.0
06	14.0	4.0	54.0	133.0
07	5.0	45.0	142.0	13.0
08	196.0	4.0	3.0	2.0
09	0.0	0.0	11.0	194.0
10	24.0	9.0	117.0	55.0
11	57.0	6.0	112.0	30.0
12	23.0	100.0	59.0	23.0
13	34.0	63.0	30.0	78.0
14	36.0	45.0	39.0	85.0

PFM

	A	C	G	T
01	0.517	0.137	0.215	0.132
02	0.132	0.01	0.054	0.805
03	0.059	0.015	0.907	0.02
04	0.956	0.005	0.02	0.02
05	0.024	0.098	0.034	0.844
06	0.068	0.02	0.263	0.649
07	0.024	0.22	0.693	0.063
08	0.956	0.02	0.015	0.01
09	0.0	0.0	0.054	0.946
10	0.117	0.044	0.571	0.268
11	0.278	0.029	0.546	0.146
12	0.112	0.488	0.288	0.112
13	0.166	0.307	0.146	0.38
14	0.176	0.22	0.19	0.415

PWM

	A	C	G	T
01	0.714	-0.584	-0.148	-0.618
02	-0.618	-2.759	-1.45	1.152
03	-1.372	-2.497	1.271	-2.289
04	1.323	-3.116	-2.289	-2.289
05	-2.117	-0.902	-1.842	1.199
06	-1.232	-2.289	0.051	0.938
07	-2.117	-0.127	1.003	-1.3
08	1.323	-2.289	-2.497	-2.759
09	-3.677	-3.677	-1.45	1.312
10	-0.73	-1.627	0.811	0.069
11	0.104	-1.97	0.768	-0.518
12	-0.771	0.656	0.137	-0.771
13	-0.398	0.202	-0.518	0.411
14	-0.343	-0.127	-0.265	0.496

Standard thresholds

P-value	Threshold
0.001	4.39371
0.0005	5.30306
0.0001	7.18751