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Associated diseases

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DAPPLE specifications

Information


Unique identifier OMICS_05948
Name DAPPLE
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Maintainer


Additional information


http://saphire.usask.ca/saphire/dapple2/about.html Previous version of the tool available at http://saphire.usask.ca/saphire/dapple/index.html

Publications for DAPPLE

DAPPLE in publications

 (5)
PMCID: 4821552
PMID: 27046079
DOI: 10.1371/journal.pone.0152809

[…] phosphorylation sites in many species is limited, it is difficult to accurately calculate the fi’s using experimental data. thus, we calculated the fi’s by employing the online tool dapple [] to predict phosphorylation sites in the various species using experimentally-determined phosphorylation sites from human (the species with the greatest number of known phosphorylation […]

PMCID: 4767573
PMID: 26808113
DOI: 10.1038/ng.3496

[…] of 1×10−4., in order to investigate how our novel loci interact with other genes, we used curated network interactions using the disease association protein-protein link evaluator database (dapple v2.0). we used a seed of all our novel loci (both left and right flanking genes were also used for intergenic signals) and 20,000 within-degree-node permutations. we chose to simplify […]

PMCID: 4668846
PMID: 26664921
DOI: 10.3389/fvets.2014.00022

[…] of the full protein for this to be possible, the phosphorylation site was represented by the first 15 residues or last 15 residues of the full protein, respectively. for each of these peptides, dapple performed a protein blast search using the peptide as the query, and the chicken or turkey proteome as the database. dapple then reports the best match in the chicken or turkey proteome […]

PMCID: 4668848
PMID: 26664912
DOI: 10.3389/fvets.2014.00004

[…] while not a significant concern when generating arrays for mammalian species, this was of import for livestock species of greater evolutionary distance, such as poultry., a software platform called dapple was developed to address these limitations (). the advantage of dapple over the original approach was that it provided more definitive, objective criteria for identifying non-orthologous […]

PMCID: 4033134
PMID: 24904639
DOI: 10.3389/fgene.2014.00139

[…] (lukashin and borodovsky, ), giving 27,730 predicted proteins. proteins from these three sources were then combined to create a final honeybee proteome consisting of 40,451 proteins. using the dapple program (trost et al., ), the 15-mer peptides from phosphositeplus and phospho.elm were searched using blast against the honeybee proteome to find homologous sites. dapple produced a table […]


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DAPPLE institution(s)
Vaccine and Infectious Disease Organization, University of Saskatchewan, Saskatoon, SK, Canada; Department of Computer Science, University of Saskatchewan, Saskatoon, SK, Canada; Department of Biochemistry, University of Saskatchewan, Saskatoon, SK, Canada

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