Proteomics

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Spectral library of Solanum lycopersicum for SWATH-MS

ABSTRACT: A spectral library was built for Solanum lycopersicum. The spectral library allows reproducible quantification for thousands of peptides per SWATH-MS analysis. Proteins from Solanum lycopersicum pericarp were digested with trypsin using in-gel digestion and the peptides were fractionated by high-pH reverse phase chromatography. HRM peptides were spiked into the peptides mixture and each fraction was injected on a Sciex TripleTOF 6600 mass spectrometer fitted with microflow set-up. The resulting .wiff files were analysed using MaxQuant and Spectronaut.

INSTRUMENT(S): TripleTOF 6600

ORGANISM(S): Solanum Lycopersicum (ncbitaxon:4081)

SUBMITTER: Kathryn Susan Lilley  

PROVIDER: MSV000081074 | MassIVE | Thu May 11 04:04:00 BST 2017

SECONDARY ACCESSION(S): PXD006493

REPOSITORIES: MassIVE

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Publications

Spectral Libraries for SWATH-MS Assays for Drosophila melanogaster and Solanum lycopersicum.

Fabre Bertrand B   Korona Dagmara D   Mata Clara I CI   Parsons Harriet T HT   Deery Michael J MJ   Hertog Maarten L A T M MLATM   Nicolaï Bart M BM   Russell Steven S   Lilley Kathryn S KS  

Proteomics 20171101 21

Quantitative proteomics methods have emerged as powerful tools for measuring protein expression changes at the proteome level. Using MS-based approaches, it is now possible to routinely quantify thousands of proteins. However, prefractionation of the samples at the protein or peptide level is usually necessary to go deep into the proteome, increasing both MS analysis time and technical variability. Recently, a new MS acquisition method named SWATH is introduced with the potential to provide good  ...[more]

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