Specter: linear deconvolution for targeted analysis of data-independent acquisition mass spectrometry proteomics.

ABSTRACT: Mass spectrometry with data-independent acquisition (DIA) is a promising method to improve the comprehensiveness and reproducibility of targeted and discovery proteomics, in theory by systematically measuring all peptide precursors in a biological sample. However, the analytical challenges involved in discriminating between peptides with similar sequences in convoluted spectra have limited its applicability in important cases, such as the detection of single-nucleotide polymorphisms (SNPs) and alternative site localizations in phosphoproteomics data. We report Specter (https://github.com/rpeckner-broad/Specter), an open-source software tool that uses linear algebra to deconvolute DIA mixture spectra directly through comparison to a spectral library, thus circumventing the problems associat

SUBMITTER: Peckner R 

PROVIDER: S-EPMC5924490 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature