Prioritized mass spectrometry increases the depth, sensitivity and data completeness of single-cell proteomics
Published 2023 View Full Article
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Title
Prioritized mass spectrometry increases the depth, sensitivity and data completeness of single-cell proteomics
Authors
Keywords
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Journal
NATURE METHODS
Volume 20, Issue 5, Pages 714-722
Publisher
Springer Science and Business Media LLC
Online
2023-04-04
DOI
10.1038/s41592-023-01830-1
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- MaxQuant.Live Enables Enhanced Selectivity and Identification of Peptides Modified by Endogenous SUMO and Ubiquitin
- (2021) Ivo A. Hendriks et al. JOURNAL OF PROTEOME RESEARCH
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- (2021) Erwin M. Schoof et al. Nature Communications
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- (2021) He Zhu et al. ANALYTICAL CHEMISTRY
- Driving Single Cell Proteomics Forward with Innovation
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- (2021) Aleksandra A. Petelski et al. Nature Protocols
- Full-featured, real-time database searching platform enables fast and accurate multiplexed quantitative proteomics.
- (2020) Devin K. Schweppe et al. JOURNAL OF PROTEOME RESEARCH
- Unpicking the proteome in single cells
- (2020) Nikolai Slavov SCIENCE
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- (2020) Philip M. Remes et al. ANALYTICAL CHEMISTRY
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- (2019) Christoph Wichmann et al. MOLECULAR & CELLULAR PROTEOMICS
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- (2019) Albert Tian Chen et al. PLoS Computational Biology
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- (2018) Harrison Specht et al. JOURNAL OF PROTEOME RESEARCH
- Application of targeted mass spectrometry in bottom-up proteomics for systems biology research
- (2018) Nathan P. Manes et al. Journal of Proteomics
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- (2018) Pavel Sinitcyn et al. NATURE METHODS
- A Strategy to Combine Sample Multiplexing with Targeted Proteomics Assays for High-Throughput Protein Signature Characterization
- (2017) Brian K. Erickson et al. MOLECULAR CELL
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- (2017) Neil D Rawlings et al. NUCLEIC ACIDS RESEARCH
- Gasdermin D is an executor of pyroptosis and required for interleukin-1β secretion
- (2015) Wan-ting He et al. CELL RESEARCH
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- (2015) Abhishek K. Jha et al. IMMUNITY
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- (2015) Roland Bruderer et al. MOLECULAR & CELLULAR PROTEOMICS
- Negative Self-Regulation of TLR9 Signaling by Its N-Terminal Proteolytic Cleavage Product
- (2014) Sungwook Lee et al. JOURNAL OF IMMUNOLOGY
- Intelligent Data Acquisition Blends Targeted and Discovery Methods
- (2014) Derek J. Bailey et al. JOURNAL OF PROTEOME RESEARCH
- A sentinel protein assay for simultaneously quantifying cellular processes
- (2014) Martin Soste et al. NATURE METHODS
- The GOA database: Gene Ontology annotation updates for 2015
- (2014) Rachael P. Huntley et al. NUCLEIC ACIDS RESEARCH
- Protein Analysis by Shotgun/Bottom-up Proteomics
- (2013) Yaoyang Zhang et al. CHEMICAL REVIEWS
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- (2013) Jolene K. Diedrich et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
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- (2013) Paola Picotti et al. NATURE
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