HXB4.H14INVITRO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXB4.H14INVITRO.0.P.B
Gene (human)	HOXB4 (GeneCards)
Gene synonyms (human)	HOX2F
Gene (mouse)	Hoxb4
Gene synonyms (mouse)	Hox-2.6, Hoxb-4
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	9
Consensus	TRATKRMTd
GC content	33.71%
Information content (bits; total / per base)	8.214 / 0.913
Data sources	ChIP-Seq
Aligned words	1027
Previous names	HXB4.H12INVITRO.0.P.B

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	3 (21)	0.727	0.802	0.616	0.727	0.714	0.79	2.215	2.905	220.076	313.585

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.763	0.69	0.703	0.653	0.641	0.615
Overall, 2 experiments	best	0.825	0.742	0.78	0.711	0.717	0.669
Methyl HT-SELEX, 1 experiments	median	0.701	0.638	0.627	0.596	0.565	0.56
Methyl HT-SELEX, 1 experiments	best	0.701	0.638	0.627	0.596	0.565	0.56
Non-Methyl HT-SELEX, 1 experiments	median	0.825	0.742	0.78	0.711	0.717	0.669
Non-Methyl HT-SELEX, 1 experiments	best	0.825	0.742	0.78	0.711	0.717	0.669

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	HOX4 {3.1.1.4} (TFClass)
TFClass ID	TFClass: 3.1.1.4.2
HGNC	HGNC:5115
MGI	MGI:96185
EntrezGene (human)	GeneID:3214 (SSTAR profile)
EntrezGene (mouse)	GeneID:15412 (SSTAR profile)
UniProt ID (human)	HXB4_HUMAN
UniProt ID (mouse)	HXB4_MOUSE
UniProt AC (human)	P17483 (TFClass)
UniProt AC (mouse)	P10284 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 3 mouse
HT-SELEX	1
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	HXB4.H14INVITRO.0.P.B.pcm
PWM	HXB4.H14INVITRO.0.P.B.pwm
PFM	HXB4.H14INVITRO.0.P.B.pfm
Threshold to P-value map	HXB4.H14INVITRO.0.P.B.thr
Motif in other formats
JASPAR format	HXB4.H14INVITRO.0.P.B_jaspar_format.txt
MEME format	HXB4.H14INVITRO.0.P.B_meme_format.meme
Transfac format	HXB4.H14INVITRO.0.P.B_transfac_format.txt
Homer format	HXB4.H14INVITRO.0.P.B_homer_format_0.001.txt HXB4.H14INVITRO.0.P.B_homer_format_0.0005.txt HXB4.H14INVITRO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	147.0	16.0	36.0	828.0
02	233.0	29.0	749.0	16.0
03	933.0	25.0	40.0	29.0
04	14.0	80.0	58.0	875.0
05	86.0	12.0	328.0	601.0
06	327.0	24.0	623.0	53.0
07	695.0	264.0	61.0	7.0
08	66.0	73.0	47.0	841.0
09	95.0	94.0	557.0	281.0

PFM

	A	C	G	T
01	0.143	0.016	0.035	0.806
02	0.227	0.028	0.729	0.016
03	0.908	0.024	0.039	0.028
04	0.014	0.078	0.056	0.852
05	0.084	0.012	0.319	0.585
06	0.318	0.023	0.607	0.052
07	0.677	0.257	0.059	0.007
08	0.064	0.071	0.046	0.819
09	0.093	0.092	0.542	0.274

PWM

	A	C	G	T
01	-0.553	-2.679	-1.924	1.166
02	-0.096	-2.129	1.066	-2.679
03	1.285	-2.269	-1.824	-2.129
04	-2.799	-1.151	-1.465	1.221
05	-1.081	-2.935	0.243	0.847
06	0.24	-2.307	0.882	-1.552
07	0.992	0.028	-1.416	-3.388
08	-1.339	-1.241	-1.668	1.182
09	-0.983	-0.993	0.771	0.09

Standard thresholds

P-value	Threshold
0.001	4.980035
0.0005	5.700815
0.0001	7.04952