MaxDIA enables library-based and library-free data-independent acquisition proteomics | Nature Biotechnology
Strategies to enable large-scale proteomics for reproducible research | Nature Communications
Frontiers | Recent Developments in Data Independent Acquisition (DIA) Mass Spectrometry: Application of Quantitative Analysis of the Brain Proteome
Ultra-fast proteomics with Scanning SWATH | Nature Biotechnology
Benchmarking commonly used software suites and analysis workflows for DIA proteomics and phosphoproteomics | Nature Communications
Implementing the reuse of public DIA proteomics datasets: from the PRIDE database to Expression Atlas | Scientific Data
Benchmarking of analysis strategies for data-independent acquisition proteomics using a large-scale dataset comprising inter-patient heterogeneity | Nature Communications
Time-resolved in vivo ubiquitinome profiling by DIA-MS reveals USP7 targets on a proteome-wide scale | Nature Communications
Hybrid-DIA: intelligent data acquisition integrates targeted and discovery proteomics to analyze phospho-signaling in single spheroids | Nature Communications
Deep learning boosts sensitivity of mass spectrometry-based immunopeptidomics | Nature Communications
Multiplexed peptide analysis using data-independent acquisition and Skyline | Nature Protocols
A comprehensive spectral assay library to quantify the Escherichia coli proteome by DIA/SWATH-MS | Scientific Data
DDA and DIA are the common data acquisition strategies in shotgun... | Download Scientific Diagram
Group-DIA: analyzing multiple data-independent acquisition mass spectrometry data files | Nature Methods
Deep Proteomics Using Two Dimensional Data Independent Acquisition Mass Spectrometry | Analytical Chemistry
New Nature Communications publication by Mann & Theis Groups harnesses the benefits of large-scale peptide
A comprehensive LFQ benchmark dataset on modern day acquisition strategies in proteomics | Scientific Data
Robust, reproducible and quantitative analysis of thousands of proteomes by micro-flow LC–MS/MS | Nature Communications
Prosit: proteome-wide prediction of peptide tandem mass spectra by deep learning | Nature Methods
Prioritized mass spectrometry increases the depth, sensitivity and data completeness of single-cell proteomics | Nature Methods
IceR improves proteome coverage and data completeness in global and single-cell proteomics | Nature Communications
Mass-spectrometric exploration of proteome structure and function | Nature
Deep representation features from DreamDIAXMBD improve the analysis of data-independent acquisition proteomics | Communications Biology
Quantifying Plant Dynamic Proteomes by SWATH-based Mass Spectrometry: Trends in Plant Science
