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Protocols

PA specifications

Information


Unique identifier OMICS_27204
Name PA
Alternative name Proteome Analyst
Interface Web user interface
Restrictions to use None
Computer skills Basic
Maintained Yes

Maintainer


  • person_outline Paul Lu

Publication for Proteome Analyst

PA citations

 (33)
call_split

In silico re identification of properties of drug target proteins

2017
BMC Bioinformatics
PMCID: 5471946
PMID: 28617227
DOI: 10.1186/s12859-017-1639-3
call_split See protocol

[…] rvation information. As a result, about 43% of human proteins had their subcellular location; however, the others still remain unrevealed. For these, we used five prediction programs (CELLO, pTarget, Proteome Analyst, WoLFPSORT, and MultiLoc) [], and their subcellular locations were determined if they were supported by at least three prediction tools. In this study, we exploited ten subcellular lo […]

library_books

Predicting Protein Subcellular Localization: Past, Present, and Future

2016
PMCID: 5187447
PMID: 15901249
DOI: 10.1016/S1672-0229(04)02027-3

[…] on of nuclear localization sequences (NLSs; ref. ). A nearest neighbour approach using the composition of functional domains has also been presented and tested on the Reinhardt and Hubbard data set . Proteome Analyst, presented by Lu et al., is based on SWISS-PROT keywords and the annotation of homologous proteins . This method is similar to the LOCkey and LOChom methods described by Nair and Ro […]

library_books

In silico characterization of putative drug targets in Staphylococcus saprophyticus, causing bovine mastitis

2013
Bioinformation
PMCID: 3669785
PMID: 23750077
DOI: 10.6026/97320630009339

[…] l wall (4%), 3 pathways were located in cell membrane (7%) and 39 pathways in cytoplasm (89%). Similar studies have been carried out by [] for finding the location of sub cellular components by using Proteome Analyst Specialized Sub Cellular Localization (PA-SUB) Server v2.5 []. This is required to find out the cell wall proteins which could be probable drug targets. Folate biosynthesis pathway an […]

library_books

Evolutionary history of human disease genes reveals phenotypic connections and comorbidity among genetic diseases

2012
Sci Rep
PMCID: 3477654
PMID: 23091697
DOI: 10.1038/srep00757

[…] zation information was assigned to every disease-associated protein. Briefly, the underlying data stems from the Swiss Prot annotation information and subcellular-localization predictors, ConLoc, and Proteome Analyst, which have previously been shown to be effective for mapping subcellular-localization information to disease-associated proteins. Subcellular-localization information was available f […]

library_books

Identification of defensin encoding genes of Picea glauca: characterization of PgD5, a conserved spruce defensin with strong antifungal activity

2012
BMC Plant Biol
PMCID: 3502332
PMID: 23035776
DOI: 10.1186/1471-2229-12-180

[…] R server [,]. The peptide structure of PgD5 was evaluated for the presence of a signal peptide sequence with SignalP [] and sub-cellular localization directed by signal peptide was predicted on the Proteome Analyst Specialized Sub-cellular Localization Server (PA-SUB) []. The peptide mass prediction was done with the Expasy tool, PEPTIDE-MASS []. […]

library_books

Prediction and Analysis of the Protein Interactome in Pseudomonas aeruginosa to Enable Network Based Drug Target Selection

2012
PLoS One
PMCID: 3404098
PMID: 22848443
DOI: 10.1371/journal.pone.0041202

[…] ent localization motifs exist for PAO1 proteins: cytoplasmic membrane, extracellular, cytoplasm, periplasm, and outer membrane. The subcellular localization data for each PAO1 protein is predicted by Proteome Analyst Specialized Subcellular Localization (PASSL) Server v2.5 (http://www.cs.ualberta.ca/~bioinfo/PA/Sub/). A categorical co-localization value is then compiled for each pair of proteins. […]

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PA institution(s)
Department of Computing Science, University of Alberta, Edmonton, AB, Canada
PA funding source(s)
Supported by research or equipment grants from the Protein Engineering Network of Centres of Excellence, the Natural Sciences and Engineering Research Council of Canada, Alberta Ingenuity Centre for Machine Learning, Sun Microsystems, SGI, and the Alberta Science and Research Authority.

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