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Mass spectrometry-based draft of the mouse proteome

ABSTRACT: Quantitative draft map of the proteomes of 41 healthy tissues of the animal model Mus musculus and a panel of 66 murine pancreatic ductal adenocarcinoma cell lines and. Our in-depth analysis provides evidence for proteins encoded by >16,000 genes (~76% of the total annotated protein-coding genes), where they are expressed and in which quantities. Moreover, a widespread yet tissue- and cell type-specific phosphorylation pattern is clearly represented in our data (>50,000 sites). We further leverage our analysis by integrating the phenotypic response of a the murine PDAC cell lines panel to cancer drugs and ionizing radiation, to shed light on the molecular mechanisms underlying drug action and radioresistance. This large and unique atlas is made available to the scientific community also via ProteomicsDB (https://www.proteomicsDB.org) and the interactive web application PACiFIC (http://pacific.proteomics.wzw.tum.de).

INSTRUMENT(S): Q Exactive HF-X, Orbitrap Exploris 480, Q Exactive HF

ORGANISM(S): Mus Musculus (mouse)

TISSUE(S): Spleen, Testis, Heart, Brain, Liver, Lung, Nerve Cord, Lymph Node, Colon, Pancreas, Adipose Tissue, Kidney

SUBMITTER: Piero Giansanti

LAB HEAD: Bernhard Kuster

PROVIDER: PXD030983 | Pride | 2022-04-01

REPOSITORIES: Pride

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Mass spectrometry-based draft of the mouse proteome.

Giansanti Piero P Samaras Patroklos P Bian Yangyang Y Meng Chen C Coluccio Andrea A Frejno Martin M Jakubowsky Hannah H Dobiasch Sophie S Hazarika Rashmi R RR Rechenberger Julia J Calzada-Wack Julia J Krumm Johannes J Mueller Sebastian S Lee Chien-Yun CY Wimberger Nicole N Lautenbacher Ludwig L Hassan Zonera Z Chang Yun-Chien YC Falcomatà Chiara C Bayer Florian P FP Bärthel Stefanie S Schmidt Tobias T Rad Roland R Combs Stephanie E SE The Matthew M Johannes Frank F Saur Dieter D de Angelis Martin Hrabe MH Wilhelm Mathias M Schneider Günter G Kuster Bernhard B

Nature methods 20220616 7

The laboratory mouse ranks among the most important experimental systems for biomedical research and molecular reference maps of such models are essential informational tools. Here, we present a quantitative draft of the mouse proteome and phosphoproteome constructed from 41 healthy tissues and several lines of analyses exemplify which insights can be gleaned from the data. For instance, tissue- and cell-type resolved profiles provide protein evidence for the expression of 17,000 genes, thousand ...[more]

PMID: 35710609

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Mass spectrometry-based draft of the mouse proteome

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Mass spectrometry-based draft of the mouse proteome.

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