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ProteoAnnotator specifications

Information


Unique identifier OMICS_06909
Name ProteoAnnotator
Software type Pipeline/Workflow
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Medium
Stability Stable
Maintained Yes

Versioning


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Publication for ProteoAnnotator

ProteoAnnotator citations

 (3)
library_books

Fast, Quantitative and Variant Enabled Mapping of Peptides to Genomes

2017
Cell Syst
PMCID: 5571441
PMID: 28837811
DOI: 10.1016/j.cels.2017.07.007

[…] ponding RNA-sequencing data on a reference genome are now increasingly indispensable. Numerous approaches have been implemented such as Proteogenomic Mapping Tool (), PGNexus (), PGMiner (), ACTG (), ProteoAnnotator (), ProBamSuite (), iPiG (), and PGx (). Key attributes such as mapping reference (proteome or genome), grade of integration with other proteomics tools, and support of online and offl […]

library_books

Stage specific Proteomes from Onchocerca ochengi, Sister Species of the Human River Blindness Parasite, Uncover Adaptations to a Nodular Lifestyle*

2016
PMCID: 4974336
PMID: 27226403
DOI: 10.1074/mcp.M115.055640

[…] (i.e. a single gene incorrectly annotated as two or more genes because of fragmentation between contigs and/or frameshift errors) affect the accuracy of protein identification and quantification, the ProteoAnnotator pipeline () was used to objectively assess the strength of evidence for peptide-spectrum matches against O. ochengi versus O. volvulus gene models.The O. ochengi gene models from relea […]

library_books

A large scale proteogenomics study of apicomplexan pathogens—Toxoplasma gondii and Neospora caninum

2015
Proteomics
PMCID: 4692086
PMID: 25867681
DOI: 10.1002/pmic.201400553

[…] http://toxodb.org/cgi-bin/gbrowse/toxodb/?start=5924028;stop=5974027;ref=TGME49_chrVIII;width=800;version=100;flip=0;grid=1;id=d6546393407f30e0e323ffd34a77b61a;l=peptide_ToxoDB_18db2e_http_http://www.proteoannotator.org_datasets_Toxo10_official_peptides.gff_1%1EGene—where datasets can be viewed alongside RNA-Seq and other large-scale datasets (On GBrowse—Click “Select Tracks,” “Supplementary Data […]

Citations

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ProteoAnnotator institution(s)
Institute of Integrative Biology, University of Liverpool, Liverpool, UK

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