标题
Inference and quantification of peptidoforms in large sample cohorts by SWATH-MS
作者
关键词
-
出版物
NATURE BIOTECHNOLOGY
Volume 35, Issue 8, Pages 781-788
出版商
Springer Nature
发表日期
2017-06-12
DOI
10.1038/nbt.3908
参考文献
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注意:仅列出部分参考文献,下载原文获取全部文献信息。- Reduced-representation Phosphosignatures Measured by Quantitative Targeted MS Capture Cellular States and Enable Large-scale Comparison of Drug-induced Phenotypes
- (2016) Jennifer G. Abelin et al. MOLECULAR & CELLULAR PROTEOMICS
- Mass-spectrometric exploration of proteome structure and function
- (2016) Ruedi Aebersold et al. NATURE
- A multicenter study benchmarks software tools for label-free proteome quantification
- (2016) Pedro Navarro et al. NATURE BIOTECHNOLOGY
- Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry
- (2016) Robert T Lawrence et al. NATURE METHODS
- TRIC: an automated alignment strategy for reproducible protein quantification in targeted proteomics
- (2016) Hannes L Röst et al. NATURE METHODS
- OpenMS: a flexible open-source software platform for mass spectrometry data analysis
- (2016) Hannes L Röst et al. NATURE METHODS
- The MaxQuant computational platform for mass spectrometry-based shotgun proteomics
- (2016) Stefka Tyanova et al. Nature Protocols
- Untargeted, spectral library-free analysis of data-independent acquisition proteomics data generated using Orbitrap mass spectrometers
- (2016) Chih-Chiang Tsou et al. PROTEOMICS
- Data-independent-acquisition mass spectrometry for identification of targeted-peptide site-specific modifications
- (2015) Caleb J. Porter et al. ANALYTICAL AND BIOANALYTICAL CHEMISTRY
- State of the Human Proteome in 2014/2015 As Viewed through PeptideAtlas: Enhancing Accuracy and Coverage through the AtlasProphet
- (2015) Eric W. Deutsch et al. JOURNAL OF PROTEOME RESEARCH
- Quantification of SAHA-Dependent Changes in Histone Modifications Using Data-Independent Acquisition Mass Spectrometry
- (2015) Kimberly A. Krautkramer et al. JOURNAL OF PROTEOME RESEARCH
- mapDIA: Preprocessing and statistical analysis of quantitative proteomics data from data independent acquisition mass spectrometry
- (2015) Guoshou Teo et al. Journal of Proteomics
- Peptide-Centric Proteome Analysis: An Alternative Strategy for the Analysis of Tandem Mass Spectrometry Data
- (2015) Ying S. Ting et al. MOLECULAR & CELLULAR PROTEOMICS
- Sequential Window Acquisition of all Theoretical Mass Spectra (SWATH) Analysis for Characterization and Quantification of Histone Post-translational Modifications
- (2015) Simone Sidoli et al. MOLECULAR & CELLULAR PROTEOMICS
- Opening a SWATH Window on Posttranslational Modifications: Automated Pursuit of Modified Peptides
- (2015) Andrew Keller et al. MOLECULAR & CELLULAR PROTEOMICS
- Quantitative Profiling of Post-translational Modifications by Immunoaffinity Enrichment and LC-MS/MS in Cancer Serum without Immunodepletion
- (2015) Hongbo Gu et al. MOLECULAR & CELLULAR PROTEOMICS
- Quantitative variability of 342 plasma proteins in a human twin population
- (2015) Y. Liu et al. Molecular Systems Biology
- Group-DIA: analyzing multiple data-independent acquisition mass spectrometry data files
- (2015) Yuanyue Li et al. NATURE METHODS
- MSPLIT-DIA: sensitive peptide identification for data-independent acquisition
- (2015) Jian Wang et al. NATURE METHODS
- DIA-Umpire: comprehensive computational framework for data-independent acquisition proteomics
- (2015) Chih-Chiang Tsou et al. NATURE METHODS
- DIA mass spectrometry
- (2015) Allison Doerr NATURE METHODS
- Building high-quality assay libraries for targeted analysis of SWATH MS data
- (2015) Olga T Schubert et al. Nature Protocols
- 2016 update of the PRIDE database and its related tools
- (2015) Juan Antonio Vizcaíno et al. NUCLEIC ACIDS RESEARCH
- Tissue-based map of the human proteome
- (2015) M. Uhlen et al. SCIENCE
- DIANA—algorithmic improvements for analysis of data-independent acquisition MS data
- (2014) Johan Teleman et al. BIOINFORMATICS
- LuciPHOr2: site localization of generic post-translational modifications from tandem mass spectrometry data
- (2014) Damian Fermin et al. BIOINFORMATICS
- Variation and quantification among a target set of phosphopeptides in human plasma by multiple reaction monitoring and SWATH-MS2 data-independent acquisition
- (2014) Anna M. Zawadzka et al. ELECTROPHORESIS
- Software eyes for protein post-translational modifications
- (2014) Seungjin Na et al. MASS SPECTROMETRY REVIEWS
- Targeted Peptide Measurements in Biology and Medicine: Best Practices for Mass Spectrometry-based Assay Development Using a Fit-for-Purpose Approach
- (2014) Steven A. Carr et al. MOLECULAR & CELLULAR PROTEOMICS
- OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data
- (2014) Hannes L Röst et al. NATURE BIOTECHNOLOGY
- An abundant dysfunctional apolipoprotein A1 in human atheroma
- (2014) Ying Huang et al. NATURE MEDICINE
- A sentinel protein assay for simultaneously quantifying cellular processes
- (2014) Martin Soste et al. NATURE METHODS
- Myeloperoxidase, paraoxonase-1, and HDL form a functional ternary complex
- (2013) Ying Huang et al. JOURNAL OF CLINICAL INVESTIGATION
- Multiplexed and data-independent tandem mass spectrometry for global proteome profiling
- (2013) John D. Chapman et al. MASS SPECTROMETRY REVIEWS
- LuciPHOr: Algorithm for Phosphorylation Site Localization with False Localization Rate Estimation Using Modified Target-Decoy Approach
- (2013) Damian Fermin et al. MOLECULAR & CELLULAR PROTEOMICS
- Finding the right antibody for the job
- (2013) Vivien Marx NATURE METHODS
- Multiplexed MS/MS for improved data-independent acquisition
- (2013) Jarrett D Egertson et al. NATURE METHODS
- Quantifying protein interaction dynamics by SWATH mass spectrometry: application to the 14-3-3 system
- (2013) Ben C Collins et al. NATURE METHODS
- Proteoform: a single term describing protein complexity
- (2013) Lloyd M Smith et al. NATURE METHODS
- Robust phosphoproteome enrichment using monodisperse microsphere–based immobilized titanium (IV) ion affinity chromatography
- (2013) Houjiang Zhou et al. Nature Protocols
- Quantitative measurements ofN-linked glycoproteins in human plasma by SWATH-MS
- (2013) Yansheng Liu et al. PROTEOMICS
- Modification Site Localization Scoring: Strategies and Performance
- (2012) Robert J. Chalkley et al. MOLECULAR & CELLULAR PROTEOMICS
- Parallel Reaction Monitoring for High Resolution and High Mass Accuracy Quantitative, Targeted Proteomics
- (2012) Amelia C. Peterson et al. MOLECULAR & CELLULAR PROTEOMICS
- Targeted Data Extraction of the MS/MS Spectra Generated by Data-independent Acquisition: A New Concept for Consistent and Accurate Proteome Analysis
- (2012) Ludovic C. Gillet et al. MOLECULAR & CELLULAR PROTEOMICS
- Regulation of yeast central metabolism by enzyme phosphorylation
- (2012) Ana Paula Oliveira et al. Molecular Systems Biology
- A cross-platform toolkit for mass spectrometry and proteomics
- (2012) Matthew C Chambers et al. NATURE BIOTECHNOLOGY
- Selected reaction monitoring–based proteomics: workflows, potential, pitfalls and future directions
- (2012) Paola Picotti et al. NATURE METHODS
- Comet: An open-source MS/MS sequence database search tool
- (2012) Jimmy K. Eng et al. PROTEOMICS
- Using iRT, a normalized retention time for more targeted measurement of peptides
- (2012) Claudia Escher et al. PROTEOMICS
- iProphet: Multi-level Integrative Analysis of Shotgun Proteomic Data Improves Peptide and Protein Identification Rates and Error Estimates
- (2011) David Shteynberg et al. MOLECULAR & CELLULAR PROTEOMICS
- Too many roads not taken
- (2011) Aled M. Edwards et al. NATURE
- neXtProt: a knowledge platform for human proteins
- (2011) L. Lane et al. NUCLEIC ACIDS RESEARCH
- Saccharomyces Genome Database: the genomics resource of budding yeast
- (2011) J. M. Cherry et al. NUCLEIC ACIDS RESEARCH
- UniProt Knowledgebase: a hub of integrated protein data
- (2011) M. Magrane et al. Database-The Journal of Biological Databases and Curation
- Mass spectrometric analysis of asparagine deamidation and aspartate isomerization in polypeptides
- (2010) Hongqian Yang et al. ELECTROPHORESIS
- Options and considerations when selecting a quantitative proteomics strategy
- (2010) Bruno Domon et al. NATURE BIOTECHNOLOGY
- A guided tour of the Trans-Proteomic Pipeline
- (2010) Eric W. Deutsch et al. PROTEOMICS
- Protein Tyrosine Nitration: Selectivity, Physicochemical and Biological Consequences, Denitration, and Proteomics Methods for the Identification of Tyrosine-Nitrated Proteins
- (2009) Nicolas Abello et al. JOURNAL OF PROTEOME RESEARCH
- Phosphoproteomic analysis of distinct tumor cell lines in response to nocodazole treatment
- (2009) Kohji Nagano et al. PROTEOMICS
- Building consensus spectral libraries for peptide identification in proteomics
- (2008) Henry Lam et al. NATURE METHODS
- Semisupervised Model-Based Validation of Peptide Identifications in Mass Spectrometry-Based Proteomics
- (2007) Hyungwon Choi et al. JOURNAL OF PROTEOME RESEARCH
- Statistical Validation of Peptide Identifications in Large-Scale Proteomics Using the Target-Decoy Database Search Strategy and Flexible Mixture Modeling
- (2007) Hyungwon Choi et al. JOURNAL OF PROTEOME RESEARCH
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