HXC10.H12INVITRO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXC10.H12INVITRO.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	12
Consensus	nhTTTATGRbbn
GC content	35.33%
Information content (bits; total / per base)	11.95 / 0.996
Data sources	HT-SELEX
Aligned words	6288

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)	0.634	0.682	0.472	0.513	0.622	0.676	1.546	1.777	13.054	29.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.951	0.92	0.922	0.886	0.852	0.822
Overall, 8 experiments	best	0.98	0.962	0.977	0.959	0.969	0.949
Methyl HT-SELEX, 2 experiments	median	0.976	0.955	0.972	0.95	0.958	0.935
Methyl HT-SELEX, 2 experiments	best	0.98	0.962	0.977	0.959	0.969	0.949
Non-Methyl HT-SELEX, 6 experiments	median	0.919	0.88	0.87	0.827	0.778	0.752
Non-Methyl HT-SELEX, 6 experiments	best	0.974	0.954	0.967	0.944	0.949	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

PCM	HXC10.H12INVITRO.1.S.B.pcm
PWM	HXC10.H12INVITRO.1.S.B.pwm
PFM	HXC10.H12INVITRO.1.S.B.pfm
Alignment	HXC10.H12INVITRO.1.S.B.words.tsv
Threshold to P-value map	HXC10.H12INVITRO.1.S.B.thr
Motif in other formats
JASPAR format	HXC10.H12INVITRO.1.S.B_jaspar_format.txt
MEME format	HXC10.H12INVITRO.1.S.B_meme_format.meme
Transfac format	HXC10.H12INVITRO.1.S.B_transfac_format.txt
Homer format	HXC10.H12INVITRO.1.S.B_homer_format_0.001.txt HXC10.H12INVITRO.1.S.B_homer_format_0.0005.txt HXC10.H12INVITRO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1276.5	1489.5	1527.5	1994.5
02	868.75	846.75	810.75	3761.75
03	25.0	17.0	117.0	6129.0
04	1.0	0.0	0.0	6287.0
05	2810.0	0.0	0.0	3478.0
06	6288.0	0.0	0.0	0.0
07	0.0	1295.0	0.0	4993.0
08	0.0	0.0	6243.0	45.0
09	3764.0	0.0	2464.0	60.0
10	123.0	2753.0	2387.0	1025.0
11	747.5	2100.5	1783.5	1656.5
12	1065.75	1323.75	1501.75	2396.75

PFM

	A	C	G	T
01	0.203	0.237	0.243	0.317
02	0.138	0.135	0.129	0.598
03	0.004	0.003	0.019	0.975
04	0.0	0.0	0.0	1.0
05	0.447	0.0	0.0	0.553
06	1.0	0.0	0.0	0.0
07	0.0	0.206	0.0	0.794
08	0.0	0.0	0.993	0.007
09	0.599	0.0	0.392	0.01
10	0.02	0.438	0.38	0.163
11	0.119	0.334	0.284	0.263
12	0.169	0.211	0.239	0.381

PWM

	A	C	G	T
01	-0.208	-0.054	-0.029	0.238
02	-0.592	-0.618	-0.661	0.872
03	-4.059	-4.407	-2.581	1.36
04	-6.203	-6.579	-6.579	1.385
05	0.58	-6.579	-6.579	0.793
06	1.385	-6.579	-6.579	-6.579
07	-6.579	-0.194	-6.579	1.155
08	-6.579	-6.579	1.378	-3.507
09	0.872	-6.579	0.449	-3.231
10	-2.532	0.56	0.417	-0.427
11	-0.742	0.289	0.126	0.052
12	-0.388	-0.172	-0.046	0.421

Standard thresholds

P-value	Threshold
0.001	2.93797
0.0005	4.57597
0.0001	7.88349