LuciPHOr2: site localization of generic post-translational modifications from tandem mass spectrometry data.
basic_science · Level V
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- Record sourced from PubMed, PMID 25429062.
- Also identified by DOI 10.1093/bioinformatics/btu788 and PMC identifier 4382907.
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Abstract
We present LuciPHOr2, a site localization tool for generic post-translational modifications (PTMs) using tandem mass spectrometry data. As an extension of the original LuciPHOr (version 1) for phosphorylation site localization, the new software provides a site-level localization score for generic PTMs and associated false discovery rate called the false localization rate. We describe several novel features such as operating system independence and reduced computation time through multiple threading. We also discuss optimal parameters for different types of data and illustrate the new tool on a human skeletal muscle dataset for lysine-acetylation. The software is freely available on the SourceForge website http://luciphor2.sourceforge.net. Supplementary data are available at Bioinformatics online.
Medical subject headings
- Muscle Proteins
- Protein Processing, Post-Translational
- Sequence Analysis, Protein
- Software
- Tandem Mass Spectrometry