DLX5.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	DLX5.H12INVITRO.0.PSM.A
Gene (human)	DLX5 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Dlx5
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	13
Consensus	nvnTAATTRSnnn
GC content	37.94%
Information content (bits; total / per base)	11.72 / 0.902
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9840

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	3 (21)	0.86	0.886	0.768	0.834	0.785	0.824	2.443	2.715	120.678	163.027

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.983	0.971	0.974	0.958	0.952	0.932
Overall, 8 experiments	best	0.994	0.989	0.99	0.983	0.982	0.972
Methyl HT-SELEX, 3 experiments	median	0.986	0.977	0.979	0.965	0.962	0.945
Methyl HT-SELEX, 3 experiments	best	0.994	0.989	0.99	0.983	0.982	0.972
Non-Methyl HT-SELEX, 5 experiments	median	0.98	0.965	0.969	0.95	0.941	0.918
Non-Methyl HT-SELEX, 5 experiments	best	0.991	0.984	0.986	0.977	0.975	0.962

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.997	0.883	0.977	0.597
batch 2	0.914	0.858	0.855	0.688

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	NK-related {3.1.2} (TFClass)
TF subfamily	DLX {3.1.2.5} (TFClass)
TFClass ID	TFClass: 3.1.2.5.5
HGNC	HGNC:2918
MGI	MGI:101926
EntrezGene (human)	GeneID:1749 (SSTAR profile)
EntrezGene (mouse)	GeneID:13395 (SSTAR profile)
UniProt ID (human)	DLX5_HUMAN
UniProt ID (mouse)	DLX5_MOUSE
UniProt AC (human)	P56178 (TFClass)
UniProt AC (mouse)	P70396 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 3 mouse
HT-SELEX	5
Methyl-HT-SELEX	3

PCM	DLX5.H12INVITRO.0.PSM.A.pcm
PWM	DLX5.H12INVITRO.0.PSM.A.pwm
PFM	DLX5.H12INVITRO.0.PSM.A.pfm
Alignment	DLX5.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	DLX5.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	DLX5.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	DLX5.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	DLX5.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	DLX5.H12INVITRO.0.PSM.A_homer_format_0.001.txt DLX5.H12INVITRO.0.PSM.A_homer_format_0.0005.txt DLX5.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2417.25	3194.25	2349.25	1879.25
02	1841.75	3130.75	4087.75	779.75
03	2447.0	3147.0	2186.0	2060.0
04	7.0	99.0	0.0	9734.0
05	9840.0	0.0	0.0	0.0
06	9840.0	0.0	0.0	0.0
07	0.0	0.0	0.0	9840.0
08	1.0	7.0	15.0	9817.0
09	5044.0	8.0	4761.0	27.0
10	1017.0	5795.0	2580.0	448.0
11	1832.0	2703.0	3006.0	2299.0
12	1357.0	3322.0	3072.0	2089.0
13	1962.75	2702.75	2369.75	2804.75

PFM

	A	C	G	T
01	0.246	0.325	0.239	0.191
02	0.187	0.318	0.415	0.079
03	0.249	0.32	0.222	0.209
04	0.001	0.01	0.0	0.989
05	1.0	0.0	0.0	0.0
06	1.0	0.0	0.0	0.0
07	0.0	0.0	0.0	1.0
08	0.0	0.001	0.002	0.998
09	0.513	0.001	0.484	0.003
10	0.103	0.589	0.262	0.046
11	0.186	0.275	0.305	0.234
12	0.138	0.338	0.312	0.212
13	0.199	0.275	0.241	0.285

PWM

	A	C	G	T
01	-0.018	0.261	-0.046	-0.269
02	-0.289	0.241	0.507	-1.147
03	-0.005	0.246	-0.118	-0.177
04	-5.579	-3.191	-6.977	1.375
05	1.386	-6.977	-6.977	-6.977
06	1.386	-6.977	-6.977	-6.977
07	-6.977	-6.977	-6.977	1.386
08	-6.615	-5.579	-4.958	1.383
09	0.718	-5.477	0.66	-4.431
10	-0.882	0.856	0.048	-1.699
11	-0.294	0.094	0.2	-0.068
12	-0.594	0.3	0.222	-0.163
13	-0.226	0.094	-0.037	0.131

Standard thresholds

P-value	Threshold
0.001	2.10081
0.0005	4.39746
0.0001	8.034815