HXC10.H14INVIVO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXC10.H14INVIVO.1.S.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	1
Quality	B

Motif length	15
Consensus	nnndTTWATGRSnnn
GC content	37.95%
Information content (bits; total / per base)	10.742 / 0.716
Data sources	HT-SELEX
Aligned words	2437
Previous names	HXC10.H12INVIVO.1.S.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	2 (10)	0.641	0.684	0.476	0.509	0.63	0.679	1.563	1.777	14.958	29.721

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.95	0.915	0.925	0.887	0.842	0.816
Overall, 8 experiments	best	0.977	0.957	0.976	0.956	0.969	0.948
Methyl HT-SELEX, 2 experiments	median	0.973	0.95	0.971	0.947	0.96	0.935
Methyl HT-SELEX, 2 experiments	best	0.977	0.957	0.976	0.956	0.969	0.948
Non-Methyl HT-SELEX, 6 experiments	median	0.92	0.877	0.869	0.827	0.761	0.742
Non-Methyl HT-SELEX, 6 experiments	best	0.971	0.949	0.965	0.94	0.951	0.923

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	HXC10.H14INVIVO.1.S.B.pcm
PWM	HXC10.H14INVIVO.1.S.B.pwm
PFM	HXC10.H14INVIVO.1.S.B.pfm
Threshold to P-value map	HXC10.H14INVIVO.1.S.B.thr
Motif in other formats
JASPAR format	HXC10.H14INVIVO.1.S.B_jaspar_format.txt
MEME format	HXC10.H14INVIVO.1.S.B_meme_format.meme
Transfac format	HXC10.H14INVIVO.1.S.B_transfac_format.txt
Homer format	HXC10.H14INVIVO.1.S.B_homer_format_0.001.txt HXC10.H14INVIVO.1.S.B_homer_format_0.0005.txt HXC10.H14INVIVO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	711.5	648.5	537.5	539.5
02	581.0	735.0	531.0	590.0
03	511.0	727.0	529.0	670.0
04	525.0	345.0	355.0	1212.0
05	147.0	32.0	150.0	2108.0
06	11.0	2.0	3.0	2421.0
07	1312.0	2.0	7.0	1116.0
08	2436.0	0.0	0.0	1.0
09	5.0	470.0	1.0	1961.0
10	0.0	9.0	2250.0	178.0
11	1486.0	8.0	861.0	82.0
12	41.0	1149.0	896.0	351.0
13	319.0	794.0	651.0	673.0
14	417.25	515.25	554.25	950.25
15	473.0	636.0	474.0	854.0

PFM

	A	C	G	T
01	0.292	0.266	0.221	0.221
02	0.238	0.302	0.218	0.242
03	0.21	0.298	0.217	0.275
04	0.215	0.142	0.146	0.497
05	0.06	0.013	0.062	0.865
06	0.005	0.001	0.001	0.993
07	0.538	0.001	0.003	0.458
08	1.0	0.0	0.0	0.0
09	0.002	0.193	0.0	0.805
10	0.0	0.004	0.923	0.073
11	0.61	0.003	0.353	0.034
12	0.017	0.471	0.368	0.144
13	0.131	0.326	0.267	0.276
14	0.171	0.211	0.227	0.39
15	0.194	0.261	0.195	0.35

PWM

	A	C	G	T
01	0.155	0.062	-0.125	-0.121
02	-0.047	0.187	-0.137	-0.032
03	-0.175	0.176	-0.141	0.095
04	-0.148	-0.566	-0.538	0.686
05	-1.412	-2.891	-1.392	1.239
06	-3.854	-5.042	-4.816	1.377
07	0.765	-5.042	-4.224	0.604
08	1.383	-5.748	-5.748	-5.334
09	-4.477	-0.259	-5.334	1.167
10	-5.748	-4.022	1.304	-1.223
11	0.89	-4.118	0.345	-1.985
12	-2.655	0.633	0.385	-0.549
13	-0.644	0.264	0.066	0.099
14	-0.377	-0.167	-0.094	0.443
15	-0.252	0.043	-0.25	0.337

Standard thresholds

P-value	Threshold
0.001	4.54171
0.0005	5.64106
0.0001	7.68451