diaPASEF: parallel accumulation-serial fragmentation combined with data-independent acquisition

scientific article published on 30 November 2020

diaPASEF: parallel accumulation-serial fragmentation combined with data-independent acquisition is …
instance of (P31):
scholarly articleQ13442814

External links are
P356DOI10.1038/S41592-020-00998-0
P698PubMed publication ID33257825

P50authorMatthias MannQ110686
Ruedi AebersoldQ7377799
Isabell BludauQ63245203
Andreas-David BrunnerQ90089996
Max FrankQ97636487
Hannes L. RöstQ39404671
Florian MeierQ47171894
Ben C CollinsQ50069974
P2093author name stringNicolai Bache
Markus Lubeck
Annie Ha
Eugenia Voytik
Oliver Raether
Stephanie Kaspar-Schoenefeld
P2860cites workMultidimensional proteomics for cell biologyQ27008027
OpenMS: a flexible open-source software platform for mass spectrometry data analysisQ28278187
2016 update of the PRIDE database and its related toolsQ28603110
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantificationQ29547200
Multiplexed and data-independent tandem mass spectrometry for global proteome profiling.Q30702642
DIA mass spectrometryQ61645851
A deep proteome and transcriptome abundance atlas of 29 healthy human tissuesQ63352300
Rapid and site-specific deep phosphoproteome profiling by data-independent acquisition without the need for spectral librariesQ89602189
MaxQuant software for ion mobility enhanced shotgun proteomicsQ90204113
Acquiring and Analyzing Data Independent Acquisition Proteomics Experiments without Spectrum LibrariesQ92091720
Thesaurus: quantifying phosphopeptide positional isomersQ92297181
iq: an R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomicsQ92469236
Trapped ion mobility spectrometry and PASEF enable in-depth lipidomics from minimal sample amountsQ92711533
Trapped ion mobility spectrometry: A short reviewQ109649827
Drift time-specific collision energies enable deep-coverage data-independent acquisition proteomicsQ30714634
Reproducible quantitative proteotype data matrices for systems biologyQ31018998
The Perseus computational platform for comprehensive analysis of (prote)omics dataQ31110953
An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human ProteomesQ33859813
Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysisQ34133645
Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ.Q34157715
Next-generation proteomics: towards an integrative view of proteome dynamics.Q34315255
Processing strategies and software solutions for data-independent acquisition in mass spectrometryQ35455128
Development and evaluation of a micro- and nanoscale proteomic sample preparation methodQ35610009
Note: Integration of trapped ion mobility spectrometry with mass spectrometry.Q35640384
Examining the Influence of Phosphorylation on Peptide Ion Structure by Ion Mobility Spectrometry-Mass SpectrometryQ35918508
The Impact II, a Very High-Resolution Quadrupole Time-of-Flight Instrument (QTOF) for Deep Shotgun Proteomics.Q36103872
TRIC: an automated alignment strategy for reproducible protein quantification in targeted proteomicsQ37225838
Gas-phase separation using a trapped ion mobility spectrometer.Q37254161
Statistical control of peptide and protein error rates in large-scale targeted data-independent acquisition analysesQ38616270
Hybrid ion mobility and mass spectrometry as a separation toolQ38642458
Mass Spectrometry Applied to Bottom-Up Proteomics: Entering the High-Throughput Era for Hypothesis TestingQ38799342
Mass-spectrometric exploration of proteome structure and functionQ38954701
A "proteomic ruler" for protein copy number and concentration estimation without spike-in standards.Q38956200
Minimal, encapsulated proteomic-sample processing applied to copy-number estimation in eukaryotic cellsQ39028018
Parallel Accumulation-Serial Fragmentation (PASEF): Multiplying Sequencing Speed and Sensitivity by Synchronized Scans in a Trapped Ion Mobility Device.Q40354913
Loss-less Nano-fractionator for High Sensitivity, High Coverage ProteomicsQ42043477
Ion mobility tandem mass spectrometry enhances performance of bottom-up proteomicsQ42551486
Optimization of Experimental Parameters in Data-Independent Mass Spectrometry Significantly Increases Depth and Reproducibility of ResultsQ47103610
OpenSWATH enables automated, targeted analysis of data-independent acquisition MS dataQ48317444
Online parallel accumulation - serial fragmentation (PASEF) with a novel trapped ion mobility mass spectrometerQ58568565
A Novel LC System Embeds Analytes in Pre-formed Gradients for Rapid, Ultra-robust ProteomicsQ58783747
Data-independent acquisition-based SWATH-MS for quantitative proteomics: a tutorialQ58787412
P433issue12
P304page(s)1229-1236
P577publication date2020-11-30
P1433published inNature MethodsQ680640
P1476titlediaPASEF: parallel accumulation-serial fragmentation combined with data-independent acquisition
P478volume17

Reverse relations

cites work (P2860)
Q112307407A New Parallel High-Pressure Packing System Enables Rapid Multiplexed Production of Capillary Columns
Q112283952A comprehensive LFQ benchmark dataset on modern day acquisition strategies in proteomics
Q110698374A stress-reduced passaging technique improves the viability of human pluripotent cells
Q112639130Age-Related Differences in Structure and Function of Nasal Epithelial Cultures From Healthy Children and Elderly People
Q111149588AlphaTims: Indexing Trapped Ion Mobility Spectrometry–TOF Data for Fast and Easy Accession and Visualization
Q112305401DIA-Based Proteome Profiling of Nasopharyngeal Swabs from COVID-19 Patients
Q111441106Deep learning the collisional cross sections of the peptide universe from a million experimental values
Q117886282Four-dimensional trapped ion mobility spectrometry lipidomics for high throughput clinical profiling of human blood samples
Q109649670GproDIA enables data-independent acquisition glycoproteomics with comprehensive statistical control
Q112311568IonQuant Enables Accurate and Sensitive Label-Free Quantification With FDR-Controlled Match-Between-Runs
Q125469385Perspectives and opinions from scientific leaders on the evolution of data-independent acquisition for quantitative proteomics and novel biological applications
Q112282015Proximity proteomics of C9orf72 dipeptide repeat proteins identifies molecular chaperones as modifiers of poly-GA aggregation
Q125344970Rapid and In-Depth Coverage of the (Phospho-)Proteome With Deep Libraries and Optimal Window Design for dia-PASEF
Q115239958Recent developments in data acquisition, treatment and analysis with ion mobility‐mass spectrometry for lipidomics
Q112279192Toward Zero Variance in Proteomics Sample Preparation: Positive-Pressure FASP in 96-Well Format (PF96) Enables Highly Reproducible, Time- and Cost-Efficient Analysis of Sample Cohorts
Q112304744Trapped Ion Mobility Spectrometry and Parallel Accumulation-Serial Fragmentation in Proteomics
Q111150460Ultra‐high sensitivity mass spectrometry quantifies single‐cell proteome changes upon perturbation
Q114873576What are we imaging? Software tools and experimental strategies for annotation and identification of small molecules in mass spectrometry imaging

Search more.