A high-speed search engine pLink 2 with systematic evaluation for proteome-scale identification of cross-linked peptides
出版年份 2019 全文链接
标题
A high-speed search engine pLink 2 with systematic evaluation for proteome-scale identification of cross-linked peptides
作者
关键词
-
出版物
Nature Communications
Volume 10, Issue 1, Pages -
出版商
Springer Science and Business Media LLC
发表日期
2019-07-30
DOI
10.1038/s41467-019-11337-z
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。- Xolik: finding cross-linked peptides with maximum paired scores in linear time
- (2018) Jiaan Dai et al. BIOINFORMATICS
- Identification of MS-Cleavable and Noncleavable Chemically Cross-Linked Peptides with MetaMorpheus
- (2018) Lei Lu et al. JOURNAL OF PROTEOME RESEARCH
- Revealing the architecture of protein complexes by an orthogonal approach combining HDXMS, CXMS, and disulfide trapping
- (2018) Kunhong Xiao et al. Nature Protocols
- Structure of activated transcription complex Pol II–DSIF–PAF–SPT6
- (2018) Seychelle M. Vos et al. NATURE
- Comprehensive identification of peptides in tandem mass spectra using an efficient open search engine
- (2018) Hao Chi et al. NATURE BIOTECHNOLOGY
- Exhaustively Identifying Cross-Linked Peptides with a Linear Computational Complexity
- (2017) Fengchao Yu et al. JOURNAL OF PROTEOME RESEARCH
- Open-pNovo: De Novo Peptide Sequencing with Thousands of Protein Modifications
- (2017) Hao Yang et al. JOURNAL OF PROTEOME RESEARCH
- 65TH ASMS Conference on Mass Spectrometry and Allied Topics
- (2017) Judith Sjoberg JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- pGlyco 2.0 enables precision N-glycoproteomics with comprehensive quality control and one-step mass spectrometry for intact glycopeptide identification
- (2017) Ming-Qi Liu et al. Nature Communications
- Xilmass: A New Approach toward the Identification of Cross-Linked Peptides
- (2016) Şule Yılmaz et al. ANALYTICAL CHEMISTRY
- pTop 1.0: A High-Accuracy and High-Efficiency Search Engine for Intact Protein Identification
- (2016) Rui-Xiang Sun et al. ANALYTICAL CHEMISTRY
- Modeling Protein Excited-state Structures from “Over-length” Chemical Cross-links
- (2016) Yue-He Ding et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Fast and Accurate Protein False Discovery Rates on Large-Scale Proteomics Data Sets with Percolator 3.0
- (2016) Matthew The et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- Structure of the voltage-gated calcium channel Cav1.1 at 3.6 Å resolution
- (2016) Jianping Wu et al. NATURE
- Crosslinking and Mass Spectrometry: An Integrated Technology to Understand the Structure and Function of Molecular Machines
- (2016) Alexander Leitner et al. TRENDS IN BIOCHEMICAL SCIENCES
- Trifunctional cross-linker for mapping protein-protein interaction networks and comparing protein conformational states
- (2016) Dan Tan et al. eLife
- Tandem Mass Spectrum Identification via Cascaded Search
- (2015) Attila Kertesz-Farkas et al. JOURNAL OF PROTEOME RESEARCH
- Kojak: Efficient Analysis of Chemically Cross-Linked Protein Complexes
- (2015) Michael R. Hoopmann et al. JOURNAL OF PROTEOME RESEARCH
- A Study into the Collision-induced Dissociation (CID) Behavior of Cross-Linked Peptides
- (2015) Sven H. Giese et al. MOLECULAR & CELLULAR PROTEOMICS
- Cross-linking immunoprecipitation-MS (xIP-MS): Topological Analysis of Chromatin-associated Protein Complexes Using Single Affinity Purification
- (2015) Matthew M. Makowski et al. MOLECULAR & CELLULAR PROTEOMICS
- Proteome-wide profiling of protein assemblies by cross-linking mass spectrometry
- (2015) Fan Liu et al. NATURE METHODS
- Mapping native disulfide bonds at a proteome scale
- (2015) Shan Lu et al. NATURE METHODS
- Targeted cross-linking-mass spectrometry determines vicinal interactomes within heterogeneous RNP complexes
- (2015) Christian Trahan et al. NUCLEIC ACIDS RESEARCH
- Structure of a yeast spliceosome at 3.6-angstrom resolution
- (2015) Chuangye Yan et al. SCIENCE
- pQuant Improves Quantitation by Keeping out Interfering Signals and Evaluating the Accuracy of Calculated Ratios
- (2014) Chao Liu et al. ANALYTICAL CHEMISTRY
- The advancement of chemical cross-linking and mass spectrometry for structural proteomics: from single proteins to protein interaction networks
- (2014) Andrea Sinz Expert Review of Proteomics
- Revisiting Peptide Identification by High-Accuracy Mass Spectrometry: Problems Associated with the Use of Narrow Mass Precursor Windows
- (2014) Elena Bonzon-Kulichenko et al. JOURNAL OF PROTEOME RESEARCH
- A gas phase cleavage reaction of cross-linked peptides for protein complex topology studies by peptide fragment fingerprinting from large sequence database
- (2014) Hansuk Buncherd et al. Journal of Proteomics
- JUMP: A Tag-based Database Search Tool for Peptide Identification with High Sensitivity and Accuracy
- (2014) Xusheng Wang et al. MOLECULAR & CELLULAR PROTEOMICS
- Mass spectrometry supported determination of protein complex structure
- (2013) Thomas Walzthoeni et al. CURRENT OPINION IN STRUCTURAL BIOLOGY
- A Mechanism for Actin Filament Severing by Malaria Parasite Actin Depolymerizing Factor 1 via a Low Affinity Binding Interface
- (2013) Wilson Wong et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Matching Cross-linked Peptide Spectra: Only as Good as the Worse Identification
- (2013) Michael J. Trnka et al. MOLECULAR & CELLULAR PROTEOMICS
- Determining the calibration of confidence estimation procedures for unique peptides in shotgun proteomics
- (2012) Viktor Granholm et al. Journal of Proteomics
- Evaluating protein interactions through cross-linking mass spectrometry
- (2012) David L Tabb NATURE METHODS
- False discovery rate estimation for cross-linked peptides identified by mass spectrometry
- (2012) Thomas Walzthoeni et al. NATURE METHODS
- Identification of cross-linked peptides from complex samples
- (2012) Bing Yang et al. NATURE METHODS
- StavroX—A Software for Analyzing Crosslinked Products in Protein Interaction Studies
- (2011) Michael Götze et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- 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
- pParse: A method for accurate determination of monoisotopic peaks in high-resolution mass spectra
- (2011) Zuo-F ei Yuan et al. PROTEOMICS
- Cleavable Cross-Linker for Protein Structure Analysis: Reliable Identification of Cross-Linking Products by Tandem MS
- (2010) Mathias Q. Müller et al. ANALYTICAL CHEMISTRY
- Chemical Cross-Linking and Mass Spectrometry As a Low-Resolution Protein Structure Determination Technique
- (2010) Pragya Singh et al. ANALYTICAL CHEMISTRY
- A survey of computational methods and error rate estimation procedures for peptide and protein identification in shotgun proteomics
- (2010) Alexey I. Nesvizhskii Journal of Proteomics
- Development of a Novel Cross-linking Strategy for Fast and Accurate Identification of Cross-linked Peptides of Protein Complexes
- (2010) Athit Kao et al. MOLECULAR & CELLULAR PROTEOMICS
- A new cross-linking strategy: protein interaction reporter (PIR) technology for protein–protein interaction studies
- (2010) Xiaoting Tang et al. Molecular BioSystems
- Comparison of Database Search Strategies for High Precursor Mass Accuracy MS/MS Data
- (2009) Edward J. Hsieh et al. JOURNAL OF PROTEOME RESEARCH
- Enhancing Peptide Identification Confidence by Combining Search Methods
- (2008) Gelio Alves et al. JOURNAL OF PROTEOME RESEARCH
- DirecTag: Accurate Sequence Tags from Peptide MS/MS through Statistical Scoring
- (2008) David L. Tabb et al. JOURNAL OF PROTEOME RESEARCH
- Erratum: Corrigendum: Identification of cross-linked peptides from large sequence databases
- (2008) Oliver Rinner et al. NATURE METHODS
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