HXC10.H12RSNP.0.P.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXC10.H12RSNP.0.P.D
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	D

Motif length	11
Consensus	WGATTTATKdv
GC content	29.51%
Information content (bits; total / per base)	10.663 / 0.969
Data sources	ChIP-Seq
Aligned words	976

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)	0.758	0.848	0.686	0.781	0.77	0.855	2.797	3.442	67.203	106.071

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.765	0.699	0.703	0.653	0.634	0.61
Overall, 8 experiments	best	0.874	0.815	0.822	0.766	0.745	0.705
Methyl HT-SELEX, 2 experiments	median	0.853	0.791	0.802	0.744	0.728	0.689
Methyl HT-SELEX, 2 experiments	best	0.874	0.815	0.822	0.766	0.741	0.705
Non-Methyl HT-SELEX, 6 experiments	median	0.706	0.641	0.655	0.61	0.597	0.577
Non-Methyl HT-SELEX, 6 experiments	best	0.867	0.807	0.811	0.755	0.745	0.702

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.H12RSNP.0.P.D.pcm
PWM	HXC10.H12RSNP.0.P.D.pwm
PFM	HXC10.H12RSNP.0.P.D.pfm
Alignment	HXC10.H12RSNP.0.P.D.words.tsv
Threshold to P-value map	HXC10.H12RSNP.0.P.D.thr
Motif in other formats
JASPAR format	HXC10.H12RSNP.0.P.D_jaspar_format.txt
MEME format	HXC10.H12RSNP.0.P.D_meme_format.meme
Transfac format	HXC10.H12RSNP.0.P.D_transfac_format.txt
Homer format	HXC10.H12RSNP.0.P.D_homer_format_0.001.txt HXC10.H12RSNP.0.P.D_homer_format_0.0005.txt HXC10.H12RSNP.0.P.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	203.0	8.0	86.0	679.0
02	77.0	12.0	820.0	67.0
03	857.0	18.0	28.0	73.0
04	100.0	19.0	33.0	824.0
05	69.0	9.0	19.0	879.0
06	26.0	25.0	88.0	837.0
07	894.0	23.0	44.0	15.0
08	9.0	114.0	24.0	829.0
09	135.0	40.0	533.0	268.0
10	314.0	83.0	476.0	103.0
11	160.0	407.0	259.0	150.0

PFM

	A	C	G	T
01	0.208	0.008	0.088	0.696
02	0.079	0.012	0.84	0.069
03	0.878	0.018	0.029	0.075
04	0.102	0.019	0.034	0.844
05	0.071	0.009	0.019	0.901
06	0.027	0.026	0.09	0.858
07	0.916	0.024	0.045	0.015
08	0.009	0.117	0.025	0.849
09	0.138	0.041	0.546	0.275
10	0.322	0.085	0.488	0.106
11	0.164	0.417	0.265	0.154

PWM

	A	C	G	T
01	-0.183	-3.23	-1.03	1.019
02	-1.138	-2.885	1.207	-1.274
03	1.251	-2.523	-2.112	-1.19
04	-0.882	-2.473	-1.957	1.212
05	-1.245	-3.132	-2.473	1.277
06	-2.182	-2.219	-1.007	1.228
07	1.293	-2.297	-1.682	-2.688
08	-3.132	-0.753	-2.257	1.218
09	-0.586	-1.773	0.778	0.093
10	0.251	-1.065	0.665	-0.853
11	-0.418	0.509	0.059	-0.482

Standard thresholds

P-value	Threshold
0.001	4.547735
0.0005	5.412165
0.0001	7.19243