A public resource to quantify the proteome of zebrafish
The ensemble of proteins (proteome) present in a cell determine its biochemical state and is thus of critical importance for molecular biology. SWATH-MS is a mass spectrometric method to quantify in parallel thousands of proteins from the same biological sample that relies on a spectral library for determining protein quantities. A recent article in “Scientific Data” by the Aebersold group describes such a large spectral library to quantify 10’000 proteins in the model organism zebrafish.
Zebrafish is an increasingly popular vertebrate model system used in biomedical and physiology research. Mass spectrometry-based proteomics is an analytical technique that enables quantifying thousands of proteins in parallel from the same biological sample. As proteins are the class of molecules that control and drive most cellular processes, it is crucial to generate capabilities to measure the exact abundance of different proteins. SWATH-MS is a proteomic method developed by the Aebersold group at ETH that allows quantifying thousands of proteins in parallel with unprecedented accuracy across hundreds of samples. However, it requires a so-called spectral library containing coordinates that define which signals need to be extracted from the highly complex data acquired by mass spectrometers. Such a large spectral library across nine different tissues in zebrafish has now been published in “Scientific Data” by the Aebersold group in collaboration with the Gut group from the Nestlé Institute of Health Sciences. This new library with coordinates for over 10’000 proteins will facilitate the use of SWATH-MS proteomics to understand how proteins in zebrafish across different tissues contribute to cellular processes.
Link to the publication in external page Scientific Data.
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