HXB7.H12INVITRO.0.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXB7.H12INVITRO.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	10
Consensus	WTGATTRATK
GC content	20.0%
Information content (bits; total / per base)	14.844 / 1.484
Data sources	ChIP-Seq
Aligned words	28

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)	0.561	0.59	0.464	0.479	0.684	0.738	2.084	2.279	21.076	54.208

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.701	0.631	0.656	0.61	0.613	0.587
Overall, 4 experiments	best	0.808	0.714	0.749	0.683	0.691	0.642
Methyl HT-SELEX, 2 experiments	median	0.703	0.638	0.654	0.612	0.609	0.585
Methyl HT-SELEX, 2 experiments	best	0.808	0.714	0.749	0.683	0.684	0.642
Non-Methyl HT-SELEX, 2 experiments	median	0.701	0.631	0.656	0.61	0.617	0.587
Non-Methyl HT-SELEX, 2 experiments	best	0.782	0.689	0.745	0.672	0.691	0.639

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.H12INVITRO.0.P.C.pcm
PWM	HXB7.H12INVITRO.0.P.C.pwm
PFM	HXB7.H12INVITRO.0.P.C.pfm
Alignment	HXB7.H12INVITRO.0.P.C.words.tsv
Threshold to P-value map	HXB7.H12INVITRO.0.P.C.thr
Motif in other formats
JASPAR format	HXB7.H12INVITRO.0.P.C_jaspar_format.txt
MEME format	HXB7.H12INVITRO.0.P.C_meme_format.meme
Transfac format	HXB7.H12INVITRO.0.P.C_transfac_format.txt
Homer format	HXB7.H12INVITRO.0.P.C_homer_format_0.001.txt HXB7.H12INVITRO.0.P.C_homer_format_0.0005.txt HXB7.H12INVITRO.0.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	8.121	0.253	1.152	18.462
02	0.0	0.0	0.0	27.988
03	2.023	0.0	25.965	0.0
04	27.988	0.0	0.0	0.0
05	0.0	0.0	0.0	27.988
06	0.0	0.0	0.0	27.988
07	13.151	0.0	9.105	5.733
08	27.089	0.899	0.0	0.0
09	0.0	1.911	0.0	26.078
10	2.529	1.517	15.174	8.767

PFM

	A	C	G	T
01	0.29	0.009	0.041	0.66
02	0.0	0.0	0.0	1.0
03	0.072	0.0	0.928	0.0
04	1.0	0.0	0.0	0.0
05	0.0	0.0	0.0	1.0
06	0.0	0.0	0.0	1.0
07	0.47	0.0	0.325	0.205
08	0.968	0.032	0.0	0.0
09	0.0	0.068	0.0	0.932
10	0.09	0.054	0.542	0.313

PWM

	A	C	G	T
01	0.134	-1.976	-1.372	0.902
02	-2.241	-2.241	-2.241	1.303
03	-1.008	-2.241	1.23	-2.241
04	1.303	-2.241	-2.241	-2.241
05	-2.241	-2.241	-2.241	1.303
06	-2.241	-2.241	-2.241	1.303
07	0.58	-2.241	0.238	-0.176
08	1.271	-1.509	-2.241	-2.241
09	-2.241	-1.049	-2.241	1.235
10	-0.845	-1.203	0.715	0.204

Standard thresholds

P-value	Threshold
0.001	4.27651
0.0005	5.302735
0.0001	7.25071