HXC10.H12INVIVO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXC10.H12INVIVO.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	11
Consensus	TGATTTATKRb
GC content	30.12%
Information content (bits; total / per base)	11.026 / 1.002
Data sources	ChIP-Seq
Aligned words	1026

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)	0.765	0.857	0.691	0.791	0.772	0.859	2.814	3.465	68.031	109.284

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.728	0.666	0.67	0.626	0.611	0.589
Overall, 8 experiments	best	0.845	0.783	0.787	0.732	0.711	0.674
Methyl HT-SELEX, 2 experiments	median	0.819	0.756	0.765	0.708	0.695	0.658
Methyl HT-SELEX, 2 experiments	best	0.845	0.783	0.787	0.732	0.709	0.674
Non-Methyl HT-SELEX, 6 experiments	median	0.67	0.612	0.627	0.587	0.581	0.562
Non-Methyl HT-SELEX, 6 experiments	best	0.835	0.773	0.777	0.721	0.711	0.671

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.H12INVIVO.0.P.B.pcm
PWM	HXC10.H12INVIVO.0.P.B.pwm
PFM	HXC10.H12INVIVO.0.P.B.pfm
Alignment	HXC10.H12INVIVO.0.P.B.words.tsv
Threshold to P-value map	HXC10.H12INVIVO.0.P.B.thr
Motif in other formats
JASPAR format	HXC10.H12INVIVO.0.P.B_jaspar_format.txt
MEME format	HXC10.H12INVIVO.0.P.B_meme_format.meme
Transfac format	HXC10.H12INVIVO.0.P.B_transfac_format.txt
Homer format	HXC10.H12INVIVO.0.P.B_homer_format_0.001.txt HXC10.H12INVIVO.0.P.B_homer_format_0.0005.txt HXC10.H12INVIVO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	154.0	4.0	54.0	814.0
02	80.0	5.0	884.0	57.0
03	940.0	17.0	16.0	53.0
04	83.0	21.0	51.0	871.0
05	64.0	7.0	52.0	903.0
06	28.0	42.0	125.0	831.0
07	967.0	10.0	36.0	13.0
08	19.0	138.0	38.0	831.0
09	184.0	35.0	563.0	244.0
10	319.0	57.0	551.0	99.0
11	157.0	444.0	249.0	176.0

PFM

	A	C	G	T
01	0.15	0.004	0.053	0.793
02	0.078	0.005	0.862	0.056
03	0.916	0.017	0.016	0.052
04	0.081	0.02	0.05	0.849
05	0.062	0.007	0.051	0.88
06	0.027	0.041	0.122	0.81
07	0.942	0.01	0.035	0.013
08	0.019	0.135	0.037	0.81
09	0.179	0.034	0.549	0.238
10	0.311	0.056	0.537	0.096
11	0.153	0.433	0.243	0.172

PWM

	A	C	G	T
01	-0.506	-3.808	-1.533	1.15
02	-1.15	-3.647	1.233	-1.481
03	1.294	-2.624	-2.678	-1.551
04	-1.114	-2.43	-1.589	1.218
05	-1.368	-3.387	-1.57	1.254
06	-2.162	-1.776	-0.712	1.171
07	1.322	-3.091	-1.923	-2.864
08	-2.522	-0.614	-1.872	1.171
09	-0.33	-1.95	0.782	-0.05
10	0.217	-1.481	0.761	-0.941
11	-0.487	0.546	-0.029	-0.374

Standard thresholds

P-value	Threshold
0.001	4.47171
0.0005	5.352155
0.0001	7.213555