Meta-analysis defines principles for the design and analysis of co-fractionation mass spectrometry experiments
出版年份 2021 全文链接
标题
Meta-analysis defines principles for the design and analysis of co-fractionation mass spectrometry experiments
作者
关键词
-
出版物
NATURE METHODS
Volume 18, Issue 7, Pages 806-815
出版商
Springer Science and Business Media LLC
发表日期
2021-07-02
DOI
10.1038/s41592-021-01194-4
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- PrInCE: an R/bioconductor package for protein-protein interaction network inference from co-fractionation mass spectrometry data
- (2021) Michael A Skinnider et al. BIOINFORMATICS
- hu.MAP 2.0: integration of over 15,000 proteomic experiments builds a global compendium of human multiprotein assemblies
- (2021) Kevin Drew et al. Molecular Systems Biology
- PCprophet: a framework for protein complex prediction and differential analysis using proteomic data
- (2021) Andrea Fossati et al. NATURE METHODS
- Biophysical prediction of protein–peptide interactions and signaling networks using machine learning
- (2020) Joseph M. Cunningham et al. NATURE METHODS
- A Pan-plant Protein Complex Map Reveals Deep Conservation and Novel Assemblies
- (2020) Claire D. McWhite et al. CELL
- A reference map of the human binary protein interactome
- (2020) Katja Luck et al. NATURE
- Meltome atlas—thermal proteome stability across the tree of life
- (2020) Anna Jarzab et al. NATURE METHODS
- BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain
- (2020) Reza Pourhaghighi et al. Cell Systems
- Complex-centric proteome profiling by SEC-SWATH-MS for the parallel detection of hundreds of protein complexes
- (2020) Isabell Bludau et al. Nature Protocols
- Analytical guidelines for co-fractionation mass spectrometry obtained through global profiling of gold standard Saccharomyces cerevisiae protein complexes
- (2020) Chi Nam Ignatius Pang et al. MOLECULAR & CELLULAR PROTEOMICS
- On the robustness of graph-based clustering to random network alterations
- (2020) R. Greg Stacey et al. MOLECULAR & CELLULAR PROTEOMICS
- SECAT: Quantifying Protein Complex Dynamics across Cell States by Network-Centric Analysis of SEC-SWATH-MS Profiles
- (2020) George Rosenberger et al. Cell Systems
- SubCellBarCode: Proteome-wide Mapping of Protein Localization and Relocalization
- (2019) Lukas Minus Orre et al. MOLECULAR CELL
- Complex‐centric proteome profiling by SEC‐SWATH‐MS
- (2019) Moritz Heusel et al. Molecular Systems Biology
- Combining LOPIT with differential ultracentrifugation for high-resolution spatial proteomics
- (2019) Aikaterini Geladaki et al. Nature Communications
- Disentangling Genetic and Environmental Effects on the Proteotypes of Individuals
- (2019) Natalie Romanov et al. CELL
- Evaluating measures of association for single-cell transcriptomics
- (2019) Michael A. Skinnider et al. NATURE METHODS
- A Label-free Mass Spectrometry Method to Predict Endogenous Protein Complex Composition
- (2019) Zachary McBride et al. MOLECULAR & CELLULAR PROTEOMICS
- EPIC: software toolkit for elution profile-based inference of protein complexes
- (2019) Lucas ZhongMing Hu et al. NATURE METHODS
- Profiling the E. coli membrane interactome captured in peptidisc libraries
- (2019) Michael Luke Carlson et al. eLife
- Landscape of the Plasmodium Interactome Reveals Both Conserved and Species-Specific Functionality
- (2019) Charles Hillier et al. Cell Reports
- Co-regulation map of the human proteome enables identification of protein functions
- (2019) Georg Kustatscher et al. NATURE BIOTECHNOLOGY
- Protein Complex Identification and quantitative complexome by CN-PAGE
- (2019) Michal Gorka et al. Scientific Reports
- Systematic Discovery of Endogenous Human Ribonucleoprotein Complexes
- (2019) Anna L. Mallam et al. Cell Reports
- Ancestral reconstruction of protein interaction networks
- (2019) Benjamin J. Liebeskind et al. PLoS Computational Biology
- Next-generation interactomics: considerations for the use of co-elution to measure protein interaction networks
- (2019) Daniela Salas et al. MOLECULAR & CELLULAR PROTEOMICS
- The functional landscape of the human phosphoproteome
- (2019) David Ochoa et al. NATURE BIOTECHNOLOGY
- Interactome INSIDER: a structural interactome browser for genomic studies
- (2018) Michael J Meyer et al. NATURE METHODS
- Global analysis of protein homomerization in Saccharomyces cerevisiae
- (2018) Yeonsoo Kim et al. GENOME RESEARCH
- RawTools: Rapid and Dynamic Interrogation of Orbitrap Data Files for Mass Spectrometer System Management
- (2018) Kevin A. Kovalchik et al. JOURNAL OF PROTEOME RESEARCH
- CORUM: the comprehensive resource of mammalian protein complexes—2019
- (2018) Madalina Giurgiu et al. NUCLEIC ACIDS RESEARCH
- The PRIDE database and related tools and resources in 2019: improving support for quantification data
- (2018) Yasset Perez-Riverol et al. NUCLEIC ACIDS RESEARCH
- Genomic data integration systematically biases interactome mapping
- (2018) Michael A. Skinnider et al. PLoS Computational Biology
- Assessment of Label-Free Quantification in Discovery Proteomics and Impact of Technological Factors and Natural Variability of Protein Abundance
- (2017) MHD Rami Al Shweiki et al. JOURNAL OF PROTEOME RESEARCH
- Prediction of Protein Complexes inTrypanosoma bruceiby Protein Correlation Profiling Mass Spectrometry and Machine Learning
- (2017) Thomas W. M. Crozier et al. MOLECULAR & CELLULAR PROTEOMICS
- Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper
- (2017) Jaime Huerta-Cepas et al. MOLECULAR BIOLOGY AND EVOLUTION
- TimeTree: A Resource for Timelines, Timetrees, and Divergence Times
- (2017) Sudhir Kumar et al. MOLECULAR BIOLOGY AND EVOLUTION
- Interactome disassembly during apoptosis occurs independent of caspase cleavage
- (2017) Nichollas E Scott et al. Molecular Systems Biology
- Integration of over 9,000 mass spectrometry experiments builds a global map of human protein complexes
- (2017) Kevin Drew et al. Molecular Systems Biology
- Capturing protein communities by structural proteomics in a thermophilic eukaryote
- (2017) Panagiotis L Kastritis et al. Molecular Systems Biology
- Architecture of the human interactome defines protein communities and disease networks
- (2017) Edward L. Huttlin et al. NATURE
- Detection of dysregulated protein-association networks by high-throughput proteomics predicts cancer vulnerabilities
- (2017) John D Lapek et al. NATURE BIOTECHNOLOGY
- Global Membrane Protein Interactome Analysis usingIn vivoCrosslinking and Mass Spectrometry-based Protein Correlation Profiling
- (2016) Mark Larance et al. MOLECULAR & CELLULAR PROTEOMICS
- Systematic Errors in Peptide and Protein Identification and Quantification by Modified Peptides
- (2016) Boris Bogdanow et al. MOLECULAR & CELLULAR PROTEOMICS
- The MaxQuant computational platform for mass spectrometry-based shotgun proteomics
- (2016) Stefka Tyanova et al. Nature Protocols
- A computational interactome and functional annotation for the human proteome
- (2016) José Ignacio Garzón et al. eLife
- Bayesian Correlation Analysis for Sequence Count Data
- (2016) Daniel Sánchez-Taltavull et al. PLoS One
- A Human Interactome in Three Quantitative Dimensions Organized by Stoichiometries and Abundances
- (2015) Marco Y. Hein et al. CELL
- The BioPlex Network: A Systematic Exploration of the Human Interactome
- (2015) Edward L. Huttlin et al. CELL
- Development of a computational framework for the analysis of protein correlation profiling and spatial proteomics experiments
- (2015) Nichollas E. Scott et al. Journal of Proteomics
- Panorama of ancient metazoan macromolecular complexes
- (2015) Cuihong Wan et al. NATURE
- Version 4.0 of PaxDb: Protein abundance data, integrated across model organisms, tissues, and cell-lines
- (2015) Mingcong Wang et al. PROTEOMICS
- A Proteome-Scale Map of the Human Interactome Network
- (2014) Thomas Rolland et al. CELL
- Accurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ
- (2014) Jürgen Cox et al. MOLECULAR & CELLULAR PROTEOMICS
- Equitability, mutual information, and the maximal information coefficient
- (2014) Justin B. Kinney et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Sequence co-evolution gives 3D contacts and structures of protein complexes
- (2014) Thomas A Hopf et al. eLife
- The CRAPome: a contaminant repository for affinity purification–mass spectrometry data
- (2013) Dattatreya Mellacheruvu et al. NATURE METHODS
- Estimating relative abundances of proteins from shotgun proteomics data
- (2012) Sean McIlwain et al. BMC BIOINFORMATICS
- A Census of Human Soluble Protein Complexes
- (2012) Pierre C. Havugimana et al. CELL
- Complexome Profiling Identifies TMEM126B as a Component of the Mitochondrial Complex I Assembly Complex
- (2012) Heinrich Heide et al. Cell Metabolism
- A high-throughput approach for measuring temporal changes in the interactome
- (2012) Anders R Kristensen et al. NATURE METHODS
- Inferring Regulatory Networks from Expression Data Using Tree-Based Methods
- (2010) Vân Anh Huynh-Thu et al. PLoS One
- Quantitative genome-scale analysis of protein localization in an asymmetric bacterium
- (2009) J. N. Werner et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- An empirical framework for binary interactome mapping
- (2008) Kavitha Venkatesan et al. NATURE METHODS
- Literature-curated protein interaction datasets
- (2008) Michael E Cusick et al. NATURE METHODS
Discover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversationAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started