ArticleGenome biology2023
Quartet protein reference materials and datasets for multi-platform assessment of label-free proteomics.
Article in Genome biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Differential protein network and biological functions atlas from multi-tissue proteomics in patients with depression.Molecular psychiatry · 2026Article
- Article
- Proteomics Analysis of Celiac Disease-Active Peptides in Food Products with Partially Hydrolyzed Gluten.Journal of agricultural and food chemistry · 2026Article
- Machine learning and multi-omics technologies for precision cardiovascular medicine: advancing diagnosis, risk prediction, and therapeutic guidance.Frontiers in cardiovascular medicine · 2026Review
- Protein-level batch-effect correction enhances robustness in MS-based proteomics.Nature communications · 2025Article
- Methylation reference datasets from quartet DNA materials for benchmarking epigenome sequencing.Nature communications · 2025Article
- Construction of RNA reference materials for improving the quantification of transcriptomic data.Nature protocols · 2025Review
- Assessing the impact of batch effect associated missing values on downstream analysis in high-throughput biomedical data.Briefings in bioinformatics · 2025Article
- Assessing and mitigating batch effects in large-scale omics studies.Genome biology · 2024Review
- Reference Materials for Improving Reliability of Multiomics Profiling.Phenomics (Cham, Switzerland) · 2024Review
- Proteomics of blood extracellular vesicles in inflammatory respiratory diseases for biomarker discovery and new insights into pathophysiology.Inflammation and regeneration · 2024Review
- Multi-omics data integration using ratio-based quantitative profiling with Quartet reference materials.Nature biotechnology · 2024Article
- Reliable biological and multi-omics research through biometrology.Analytical and bioanalytical chemistry · 2024Review
- Quartet RNA reference materials improve the quality of transcriptomic data through ratio-based profiling.Nature biotechnology · 2024Article
- SEAOP: a statistical ensemble approach for outlier detection in quantitative proteomics data.Briefings in bioinformatics · 2024Article
- Quartet metabolite reference materials for inter-laboratory proficiency test and data integration of metabolomics profiling.Genome biology · 2024Article
- M-type pyruvate kinase 2 (PKM2) tetramerization alleviates the progression of right ventricle failure by regulating oxidative stress and mitochondrial dynamics.Journal of translational medicine · 2023Article
- Quartet DNA reference materials and datasets for comprehensively evaluating germline variant calling performance.Genome biology · 2023Article
- The Quartet Data Portal: integration of community-wide resources for multiomics quality control.Genome biology · 2023Article
- Correcting batch effects in large-scale multiomics studies using a reference-material-based ratio method.Genome biology · 2023Article
Corrections and comments
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Authors and funding
19 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundQuantitative proteomics is an indispensable tool in life science research. However, there is a lack of reference materials for evaluating the reproducibility of label-free liquid chromatography-tandem mass spectrometry (LC-MS/MS)-based measurements among different instruments and laboratories.
resultsHere, we develop the Quartet standard as a proteome reference material with built-in truths, and distribute the same aliquots to 15 laboratories with nine conventional LC-MS/MS platforms across six cities in China. Relative abundance of over 12,000 proteins on 816 mass spectrometry files are obtained and compared for reproducibility among the instruments and laboratories to ultimately generate proteomics benchmark datasets. There is a wide dynamic range of proteomes spanning about 7 orders of magnitude, and the injection order has marked effects on quantitative instead of qualitative characteristics.
conclusionOverall, the Quartet offers valuable standard materials and data resources for improving the quality control of proteomic analyses as well as the reproducibility and reliability of research findings.
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