Generation of a zebrafish SWATH-MS spectral library to quantify 10,000 proteins
| Autor: | Ruedi Aebersold, Joy Richard, Giulia Lizzo, Peter Blattmann, Philipp Gut, Vivienne Stutz |
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| Rok vydání: | 2019 |
| Předmět: |
Proteomics
Statistics and Probability Data Descriptor Swath ms Proteomics methods Proteomic analysis Model system Computational biology Library and Information Sciences Education 03 medical and health sciences 0302 clinical medicine Peptide Library Animals Peptide library Zebrafish 030304 developmental biology 0303 health sciences Mass spectrometry biology biology.organism_classification Computer Science Applications Proteome Statistics Probability and Uncertainty 030217 neurology & neurosurgery Information Systems |
| Zdroj: | Scientific Data Scientific Data, 6 |
| ISSN: | 2052-4463 |
| DOI: | 10.1038/sdata.2019.11 |
| Popis: | Sequential window acquisition of all theoretical mass spectra (SWATH-MS) requires a spectral library to extract quantitative measurements from the mass spectrometry data acquired in data-independent acquisition mode (DIA). Large combined spectral libraries containing SWATH assays have been generated for humans and several other organisms, but so far no publicly available library exists for measuring the proteome of zebrafish, a rapidly emerging model system in biomedical research. Here, we present a large zebrafish SWATH spectral library to measure the abundance of 104,185 proteotypic peptides from 10,405 proteins. The library includes proteins expressed in 9 different zebrafish tissues (brain, eye, heart, intestine, liver, muscle, ovary, spleen, and testis) and provides an important new resource to quantify 40% of the protein-coding zebrafish genes. We employ this resource to quantify the proteome across brain, muscle, and liver and characterize divergent expression levels of paralogous proteins in different tissues. Data are available via ProteomeXchange (PXD010876, PXD010869) and SWATHAtlas (PASS01237). Scientific Data, 6 ISSN:2052-4463 |
| Databáze: | OpenAIRE |
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