HXC10.H12INVITRO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXC10.H12INVITRO.0.P.B
Gene (human)	HOXC10 (GeneCards)
Gene synonyms (human)	HOX3I
Gene (mouse)	Hoxc10
Gene synonyms (mouse)	Hox-3.6, Hoxc-10
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	WGATTTATKdbn
GC content	31.17%
Information content (bits; total / per base)	11.449 / 0.954
Data sources	ChIP-Seq
Aligned words	989

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	2 (10)	0.739	0.824	0.661	0.754	0.766	0.837	2.725	3.335	56.219	89.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.801	0.736	0.728	0.68	0.644	0.625
Overall, 8 experiments	best	0.897	0.843	0.841	0.789	0.762	0.723
Methyl HT-SELEX, 2 experiments	median	0.879	0.821	0.819	0.766	0.737	0.703
Methyl HT-SELEX, 2 experiments	best	0.897	0.843	0.841	0.789	0.756	0.722
Non-Methyl HT-SELEX, 6 experiments	median	0.741	0.674	0.677	0.632	0.605	0.59
Non-Methyl HT-SELEX, 6 experiments	best	0.893	0.84	0.836	0.785	0.762	0.723

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: 3.1.1.8.7
HGNC	HGNC:5122
MGI	MGI:96192
EntrezGene (human)	GeneID:3226 (SSTAR profile)
EntrezGene (mouse)	GeneID:209448 (SSTAR profile)
UniProt ID (human)	HXC10_HUMAN
UniProt ID (mouse)	HXC10_MOUSE
UniProt AC (human)	Q9NYD6 (TFClass)
UniProt AC (mouse)	P31257 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	6
Methyl-HT-SELEX	2

PCM	HXC10.H12INVITRO.0.P.B.pcm
PWM	HXC10.H12INVITRO.0.P.B.pwm
PFM	HXC10.H12INVITRO.0.P.B.pfm
Alignment	HXC10.H12INVITRO.0.P.B.words.tsv
Threshold to P-value map	HXC10.H12INVITRO.0.P.B.thr
Motif in other formats
JASPAR format	HXC10.H12INVITRO.0.P.B_jaspar_format.txt
MEME format	HXC10.H12INVITRO.0.P.B_meme_format.meme
Transfac format	HXC10.H12INVITRO.0.P.B_transfac_format.txt
Homer format	HXC10.H12INVITRO.0.P.B_homer_format_0.001.txt HXC10.H12INVITRO.0.P.B_homer_format_0.0005.txt HXC10.H12INVITRO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	191.0	5.0	80.0	713.0
02	51.0	11.0	847.0	80.0
03	799.0	19.0	43.0	128.0
04	29.0	19.0	21.0	920.0
05	14.0	9.0	7.0	959.0
06	18.0	30.0	39.0	902.0
07	851.0	71.0	56.0	11.0
08	17.0	83.0	29.0	860.0
09	156.0	17.0	566.0	250.0
10	314.0	39.0	503.0	133.0
11	155.0	369.0	298.0	167.0
12	243.0	354.0	184.0	208.0

PFM

	A	C	G	T
01	0.193	0.005	0.081	0.721
02	0.052	0.011	0.856	0.081
03	0.808	0.019	0.043	0.129
04	0.029	0.019	0.021	0.93
05	0.014	0.009	0.007	0.97
06	0.018	0.03	0.039	0.912
07	0.86	0.072	0.057	0.011
08	0.017	0.084	0.029	0.87
09	0.158	0.017	0.572	0.253
10	0.317	0.039	0.509	0.134
11	0.157	0.373	0.301	0.169
12	0.246	0.358	0.186	0.21

PWM

	A	C	G	T
01	-0.256	-3.612	-1.114	1.055
02	-1.552	-2.974	1.226	-1.114
03	1.168	-2.486	-1.717	-0.652
04	-2.092	-2.486	-2.394	1.309
05	-2.762	-3.145	-3.351	1.35
06	-2.536	-2.06	-1.811	1.289
07	1.231	-1.231	-1.462	-2.974
08	-2.588	-1.078	-2.092	1.242
09	-0.457	-2.588	0.824	0.011
10	0.238	-1.811	0.707	-0.614
11	-0.463	0.398	0.186	-0.389
12	-0.017	0.357	-0.293	-0.172

Standard thresholds

P-value	Threshold
0.001	4.33701
0.0005	5.26673
0.0001	7.193135