ArticleF1000Research2019
A Bioconductor workflow for the Bayesian analysis of spatial proteomics.
Article in F1000Research, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Subcellular proteomics reveals a blueprint for endosymbiont integration in trypanosomatid Angomonas deanei.Nature communications · 2026Article
- Subcellular proteomics of the protist Paradiplonema papillatum reveals the digestive capacity of the cell membrane and the plasticity of peroxisomes across euglenozoans.PLoS biology · 2025Article
- Altered translation elongation contributes to key hallmarks of aging in the killifish brain.Science (New York, N.Y.) · 2025Article
- A Primer on Proteomic Characterization of Intercellular Communication in a Virus Microenvironment.Molecular & cellular proteomics : MCP · 2025Review
- An updated Bioconductor workflow for correlation profiling subcellular proteomics.F1000Research · 2025Article
- Recent Advancements in Subcellular Proteomics: Growing Impact of Organellar Protein Niches on the Understanding of Cell Biology.Journal of proteome research · 2024Review
- SOS1 tonoplast neo-localization and the RGG protein SALTY are important in the extreme salinity tolerance of Salicornia bigelovii.Nature communications · 2024Article
- Simultaneous proteome localization and turnover analysis reveals spatiotemporal features of protein homeostasis disruptions.Nature communications · 2024Article
- Simultaneous proteome localization and turnover analysis reveals spatiotemporal features of protein homeostasis disruptions.bioRxiv : the preprint server for biology · 2024Article
- Impaired biogenesis of basic proteins impacts multiple hallmarks of the aging brain.bioRxiv : the preprint server for biology · 2024Article
- Mapping diversity in African trypanosomes using high resolution spatial proteomics.Nature communications · 2023Article
- Genetic and phenotypic relationships between ewe reproductive performance and wool and growth traits in Uruguayan Ultrafine Merino sheep.Journal of animal science · 2023Article
- Reduced mitochondria provide an essential function for the cytosolic methionine cycle.Current biology : CB · 2022Article
- Inferring differential subcellular localisation in comparative spatial proteomics using BANDLE.Nature communications · 2022Article
- Challenges and Opportunities for Bayesian Statistics in Proteomics.Journal of proteome research · 2022Review
- Comparative Analysis of T-Cell Spatial Proteomics and the Influence of HIV Expression.Molecular & cellular proteomics : MCP · 2022Article
- Article
- Subcellular proteomics.Nature reviews. Methods primers · 2021Article
- Spatial proteomics defines the content of trafficking vesicles captured by golgin tethers.Nature communications · 2020Article
- A Comprehensive Subcellular Atlas of the Toxoplasma Proteome via hyperLOPIT Provides Spatial Context for Protein Functions.Cell host & microbe · 2020Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Knowledge of the subcellular location of a protein gives valuable insight into its function. The field of spatial proteomics has become increasingly popular due to improved multiplexing capabilities in high-throughput mass spectrometry, which have made it possible to systematically localise thousands of proteins per experiment. In parallel with these experimental advances, improved methods for analysing spatial proteomics data have also been developed. In this workflow, we demonstrate using `pRoloc` for the Bayesian analysis of spatial proteomics data. We detail the software infrastructure and then provide step-by-step guidance of the analysis, including setting up a pipeline, assessing convergence, and interpreting downstream results. In several places we provide additional details on Bayesian analysis to provide users with a holistic view of Bayesian analysis for spatial proteomics data.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.