MassIVE.quant: a community resource of quantitative mass spectrometry-based proteomics datasets.,Nature Methods

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MassIVE.quant: a community resource of quantitative mass spectrometry-based proteomics datasets.
Nature Methods ( IF 36.1 ) Pub Date : 2020-09-14 , DOI: 10.1038/s41592-020-0955-0
Meena Choi ₁ , Jeremy Carver ₂ , Cristina Chiva _{3,

4} , Manuel Tzouros ₅ , Ting Huang ₁ , Tsung-Heng Tsai ₁ , Benjamin Pullman ₂ , Oliver M Bernhardt ₆ , Ruth Hüttenhain ₇ , Guo Ci Teo ₈ , Yasset Perez-Riverol ₉ , Jan Muntel ₆ , Maik Müller ₁₀ , Sandra Goetze _{10,

11} , Maria Pavlou ₁₀ , Erik Verschueren ₇ , Bernd Wollscheid _{10,

11} , Alexey I Nesvizhskii ₈ , Lukas Reiter ₆ , Tom Dunkley ₅ , Eduard Sabidó _{3,

4} , Nuno Bandeira ₂ , Olga Vitek ₁

Affiliation

Khoury College of Computer Sciences, Northeastern University, Boston, MA, USA.
Department of Computer Science and Engineering, University of California, San Diego, La Jolla, CA, USA.
Proteomics Unit, Center for Genomics Regulation, The Barcelona Institute of Science and Technology, Barcelona, Spain.
Proteomics Unit, Universitat Pompeu Fabra, Barcelona, Spain.
Roche Pharma Research and Early Development, Pharmaceutical Sciences, Roche Innovation Center Basel, Hoffmann-La Roche Ltd, Basel, Switzerland.
Biognosys, Zurich, Switzerland.
Department of Molecular and Cellular Pharmacology, University of California, San Francisco, San Francisco, CA, USA.
Department of Pathology, University of Michigan, Ann Arbor, MI, USA.
Proteomics Services, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.
Department of Health Sciences and Technology, Institute of Translational Medicine, ETH, Zurich, Switzerland.
Swiss Institute of Bioinformatics, Lausanne, Switzerland.

MassIVE.quant is a repository infrastructure and data resource for reproducible quantitative mass spectrometry–based proteomics, which is compatible with all mass spectrometry data acquisition types and computational analysis tools. A branch structure enables MassIVE.quant to systematically store raw experimental data, metadata of the experimental design, scripts of the quantitative analysis workflow, intermediate input and output files, as well as alternative reanalyses of the same dataset.

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