HXB13.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXB13.H12INVIVO.0.PS.A
Gene (human)	HOXB13 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Hoxb13
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	WTTTATKRSnh
GC content	28.17%
Information content (bits; total / per base)	10.769 / 0.979
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1002

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	21 (108)	0.854	0.96	0.73	0.919	0.807	0.922	2.354	3.528	102.348	486.268

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.955	0.932	0.922	0.891	0.835	0.82
Overall, 4 experiments	best	0.984	0.974	0.972	0.956	0.945	0.924
Methyl HT-SELEX, 1 experiments	median	0.952	0.926	0.943	0.907	0.926	0.887
Methyl HT-SELEX, 1 experiments	best	0.952	0.926	0.943	0.907	0.926	0.887
Non-Methyl HT-SELEX, 3 experiments	median	0.957	0.937	0.902	0.875	0.743	0.754
Non-Methyl HT-SELEX, 3 experiments	best	0.984	0.974	0.972	0.956	0.945	0.924

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	11.258	7.711	0.314	0.276

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	HOX9-13 {3.1.1.8} (TFClass)
TFClass ID	TFClass: 3.1.1.8.15
HGNC	HGNC:5112
MGI	MGI:107730
EntrezGene (human)	GeneID:10481 (SSTAR profile)
EntrezGene (mouse)	GeneID:15408 (SSTAR profile)
UniProt ID (human)	HXB13_HUMAN
UniProt ID (mouse)	HXB13_MOUSE
UniProt AC (human)	Q92826 (TFClass)
UniProt AC (mouse)	P70321 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	21 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	HXB13.H12INVIVO.0.PS.A.pcm
PWM	HXB13.H12INVIVO.0.PS.A.pwm
PFM	HXB13.H12INVIVO.0.PS.A.pfm
Alignment	HXB13.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	HXB13.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	HXB13.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	HXB13.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	HXB13.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	HXB13.H12INVIVO.0.PS.A_homer_format_0.001.txt HXB13.H12INVIVO.0.PS.A_homer_format_0.0005.txt HXB13.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	118.0	83.0	107.0	694.0
02	2.0	3.0	4.0	993.0
03	5.0	8.0	4.0	985.0
04	67.0	49.0	12.0	874.0
05	982.0	6.0	10.0	4.0
06	7.0	109.0	10.0	876.0
07	216.0	5.0	316.0	465.0
08	322.0	7.0	630.0	43.0
09	65.0	259.0	577.0	101.0
10	234.0	355.0	194.0	219.0
11	226.0	264.0	93.0	419.0

PFM

	A	C	G	T
01	0.118	0.083	0.107	0.693
02	0.002	0.003	0.004	0.991
03	0.005	0.008	0.004	0.983
04	0.067	0.049	0.012	0.872
05	0.98	0.006	0.01	0.004
06	0.007	0.109	0.01	0.874
07	0.216	0.005	0.315	0.464
08	0.321	0.007	0.629	0.043
09	0.065	0.258	0.576	0.101
10	0.234	0.354	0.194	0.219
11	0.226	0.263	0.093	0.418

PWM

	A	C	G	T
01	-0.745	-1.091	-0.841	1.015
02	-4.215	-3.977	-3.785	1.372
03	-3.624	-3.255	-3.785	1.364
04	-1.3	-1.604	-2.911	1.245
05	1.361	-3.486	-3.068	-3.785
06	-3.364	-0.823	-3.068	1.247
07	-0.147	-3.624	0.231	0.615
08	0.25	-3.364	0.918	-1.73
09	-1.33	0.033	0.831	-0.898
10	-0.068	0.347	-0.254	-0.133
11	-0.102	0.052	-0.979	0.512

Standard thresholds

P-value	Threshold
0.001	4.532775
0.0005	5.498665
0.0001	7.493865