标题
Recent methodological advances towards single-cell proteomics
作者
关键词
-
出版物
PROCEEDINGS OF THE JAPAN ACADEMY SERIES B-PHYSICAL AND BIOLOGICAL SCIENCES
Volume 99, Issue 8, Pages 306-327
出版商
Japan Academy
发表日期
2023-09-06
DOI
10.2183/pjab.99.021
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。- Initial recommendations for performing, benchmarking and reporting single-cell proteomics experiments
- (2023) Laurent Gatto et al. NATURE METHODS
- Sampling the proteome by emerging single-molecule and mass spectrometry methods
- (2023) Michael J. MacCoss et al. NATURE METHODS
- High sensitivity top–down proteomics captures single muscle cell heterogeneity in large proteoforms
- (2023) Jake A. Melby et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Combined multidimensional single-cell protein and RNA profiling dissects the cellular and functional heterogeneity of thymic epithelial cells
- (2023) Fabian Klein et al. Nature Communications
- Counting protein molecules for single-cell proteomics
- (2022) Nikolai Slavov CELL
- Nanopore-Based Protein Identification
- (2022) Mazdak Afshar Bakshloo et al. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
- Label-free visual proteomics: Coupling MS- and EM-based approaches in structural biology
- (2022) Oleg Klykov et al. MOLECULAR CELL
- Streamlined single-cell proteomics by an integrated microfluidic chip and data-independent acquisition mass spectrometry
- (2022) Sofani Tafesse Gebreyesus et al. Nature Communications
- Computer-aided design of reversible hybridization chain reaction (CAD-HCR) enables multiplexed single-cell spatial proteomics imaging
- (2022) Xiaohao Liu et al. Science Advances
- Deep Visual Proteomics defines single-cell identity and heterogeneity
- (2022) Andreas Mund et al. NATURE BIOTECHNOLOGY
- Chromatin accessibility profiling by ATAC-seq
- (2022) Fiorella C. Grandi et al. Nature Protocols
- OpenCell: Endogenous tagging for the cartography of human cellular organization
- (2022) Nathan H. Cho et al. SCIENCE
- PICASSO allows ultra-multiplexed fluorescence imaging of spatially overlapping proteins without reference spectra measurements
- (2022) Junyoung Seo et al. Nature Communications
- Water Droplet-in-Oil Digestion Method for Single-Cell Proteomics
- (2022) Takeshi Masuda et al. ANALYTICAL CHEMISTRY
- PlyAB Nanopores Detect Single Amino Acid Differences in Folded Haemoglobin from Blood**
- (2022) Gang Huang et al. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
- Increasing the throughput of sensitive proteomics by plexDIA
- (2022) Jason Derks et al. NATURE BIOTECHNOLOGY
- Self-supervised deep learning encodes high-resolution features of protein subcellular localization
- (2022) Hirofumi Kobayashi et al. NATURE METHODS
- Resolving Isomeric Posttranslational Modifications Using a Biological Nanopore as a Sensor of Molecular Shape
- (2022) Tobias Ensslen et al. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
- High-plex imaging of RNA and proteins at subcellular resolution in fixed tissue by spatial molecular imaging
- (2022) Shanshan He et al. NATURE BIOTECHNOLOGY
- Real-time dynamic single-molecule protein sequencing on an integrated semiconductor device
- (2022) Brian D. Reed et al. SCIENCE
- Insights into protein post-translational modification landscapes of individual human cells by trapped ion mobility time-of-flight mass spectrometry
- (2022) Benjamin C. Orsburn et al. Nature Communications
- A ‘Build and Retrieve’ methodology to simultaneously solve cryo-EM structures of membrane proteins
- (2021) Chih-Chia Su et al. NATURE METHODS
- Deciphering molecular interactions by proximity labeling
- (2021) Wei Qin et al. NATURE METHODS
- Highly Sensitive and Multiplexed Protein Imaging With Cleavable Fluorescent Tyramide Reveals Human Neuronal Heterogeneity
- (2021) Renjie Liao et al. Frontiers in Cell and Developmental Biology
- Spatially Resolved Mass Spectrometry at the Single Cell: Recent Innovations in Proteomics and Metabolomics
- (2021) Michael J. Taylor et al. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY
- Spatiotemporal dissection of the cell cycle with single-cell proteogenomics
- (2021) Diana Mahdessian et al. NATURE
- Integrated spatial genomics reveals global architecture of single nuclei
- (2021) Yodai Takei et al. NATURE
- Diagnosis of Sepsis by AI-Aided Proteomics Using 2D Electrophoresis Images of Patient Serum Incorporating Transfer Learning for Deep Neural Networks
- (2021) Nobuhiro Hayashi et al. Applied Sciences-Basel
- Scalable, multimodal profiling of chromatin accessibility, gene expression and protein levels in single cells
- (2021) Eleni P. Mimitou et al. NATURE BIOTECHNOLOGY
- A 4D single-cell protein atlas of transcription factors delineates spatiotemporal patterning during embryogenesis
- (2021) Xuehua Ma et al. NATURE METHODS
- The emerging landscape of single-molecule protein sequencing technologies
- (2021) Javier Antonio Alfaro et al. NATURE METHODS
- CODEX multiplexed tissue imaging with DNA-conjugated antibodies
- (2021) Sarah Black et al. Nature Protocols
- Multiplexed single-cell profiling of chromatin states at genomic loci by expansion microscopy
- (2021) Marcus A Woodworth et al. NUCLEIC ACIDS RESEARCH
- Subcellular localization of biomolecules and drug distribution by high-definition ion beam imaging
- (2021) Xavier Rovira-Clavé et al. Nature Communications
- Towards Building a Quantitative Proteomics Toolbox in Precision Medicine: A Mini-Review
- (2021) Alejandro Correa Rojo et al. Frontiers in Physiology
- A time-resolved proteomic and prognostic map of COVID-19
- (2021) Vadim Demichev et al. Cell Systems
- Artificial intelligence for proteomics and biomarker discovery
- (2021) Matthias Mann et al. Cell Systems
- High-throughput single-cell quantification of hundreds of proteins using conventional flow cytometry and machine learning
- (2021) Etienne Becht et al. Science Advances
- A combined approach for single-cell mRNA and intracellular protein expression analysis
- (2021) Johan Reimegård et al. Communications Biology
- Phage-Based Profiling of Rare Single Cells Using Nanoparticle-Directed Capture
- (2021) Yuan Ma et al. ACS Nano
- Single-cell profiling of proteins and chromatin accessibility using PHAGE-ATAC
- (2021) Evgenij Fiskin et al. NATURE BIOTECHNOLOGY
- Bottom-up fabrication of a proteasome–nanopore that unravels and processes single proteins
- (2021) Shengli Zhang et al. Nature Chemistry
- Image-guided MALDI mass spectrometry for high-throughput single-organelle characterization
- (2021) Daniel C. Castro et al. NATURE METHODS
- Spatial mapping of protein composition and tissue organization: a primer for multiplexed antibody-based imaging
- (2021) John W. Hickey et al. NATURE METHODS
- Multiplexed single-cell proteomics using SCoPE2
- (2021) Aleksandra A. Petelski et al. Nature Protocols
- Single-cell nuclear architecture across cell types in the mouse brain
- (2021) Yodai Takei et al. SCIENCE
- Multiple rereads of single proteins at single–amino acid resolution using nanopores
- (2021) Henry Brinkerhoff et al. SCIENCE
- Protein identification by nanopore peptide profiling
- (2021) Florian Leonardus Rudolfus Lucas et al. Nature Communications
- High-throughput and high-efficiency sample preparation for single-cell proteomics using a nested nanowell chip
- (2021) Jongmin Woo et al. Nature Communications
- Evaluation of FRET X for single-molecule protein fingerprinting
- (2021) Carlos Victor de Lannoy et al. iScience
- ProtSeq: Toward high-throughput, single-molecule protein sequencing via amino acid conversion into DNA barcodes
- (2021) Jessica M. Hong et al. iScience
- In silico assessment of a novel single-molecule protein fingerprinting method employing fragmentation and nanopore detection
- (2021) Carlos de Lannoy et al. iScience
- In-Line Sample Processing System with an Immobilized Trypsin-Packed Fused-Silica Capillary Tube for the Proteomic Analysis of a Small Number of Mammalian Cells
- (2020) Kosuke Hata et al. ANALYTICAL CHEMISTRY
- Unpicking the proteome in single cells
- (2020) Nikolai Slavov SCIENCE
- 27-Plex Tandem Mass Tag Mass Spectrometry for Profiling Brain Proteome in Alzheimer’s Disease
- (2020) Zhen Wang et al. ANALYTICAL CHEMISTRY
- Multiplexed Discrimination of Single Amino Acid Residues in Polypeptides in a Single SERS Hot Spot
- (2020) Jian‐An Huang et al. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
- Multiplex digital spatial profiling of proteins and RNA in fixed tissue
- (2020) Christopher R. Merritt et al. NATURE BIOTECHNOLOGY
- Multiplexed single-molecule enzyme activity analysis for counting disease-related proteins in biological samples
- (2020) Shingo Sakamoto et al. Science Advances
- Ultra-High-Throughput Clinical Proteomics Reveals Classifiers of COVID-19 Infection
- (2020) Christoph B. Messner et al. Cell Systems
- Dynamic 3D proteomes reveal protein functional alterations at high resolution in situ
- (2020) Valentina Cappelletti et al. CELL
- IBEX: A versatile multiplex optical imaging approach for deep phenotyping and spatial analysis of cells in complex tissues
- (2020) Andrea J. Radtke et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Spatial proteomics: a powerful discovery tool for cell biology
- (2019) Emma Lundberg et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Improvement in Classification Performance Based on Target Vector Modification for All-Transfer Deep Learning
- (2019) Yoshihide Sawada et al. Applied Sciences-Basel
- Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH+
- (2019) Chee-Huat Linus Eng et al. NATURE
- Simulation of single-protein nanopore sensing shows feasibility for whole-proteome identification
- (2019) Shilo Ohayon et al. PLoS Computational Biology
- Proteome-wide Quantification of Labeling Homogeneity at the Single Molecule Level
- (2019) Simon Leclerc et al. Jove-Journal of Visualized Experiments
- Best practices and benchmarks for intact protein analysis for top-down mass spectrometry
- (2019) Daniel P. Donnelly et al. NATURE METHODS
- A dream of single-cell proteomics
- (2019) Vivien Marx NATURE METHODS
- Label-Free Detection of Post-translational Modifications with a Nanopore
- (2019) Laura Restrepo-Pérez et al. NANO LETTERS
- DIA-NN: neural networks and interference correction enable deep proteome coverage in high throughput
- (2019) Vadim Demichev et al. NATURE METHODS
- Bottom-up structural proteomics: cryoEM of protein complexes enriched from the cellular milieu
- (2019) Chi-Min Ho et al. NATURE METHODS
- Electrical recognition of the twenty proteinogenic amino acids using an aerolysin nanopore
- (2019) Hadjer Ouldali et al. NATURE BIOTECHNOLOGY
- Relative and Absolute Quantitation in Mass Spectrometry–Based Proteomics
- (2018) J. Astor Ankney et al. Annual Review of Analytical Chemistry
- Nucleosome-level 3D organization of the genome
- (2018) Masae Ohno et al. BIOCHEMICAL SOCIETY TRANSACTIONS
- Extending single molecule imaging to proteome analysis by quantitation of fluorescent labeling homogeneity in complex protein samples
- (2018) Simon Leclerc et al. BIOCONJUGATE CHEMISTRY
- Single-molecule peptide fingerprinting
- (2018) Jetty van Ginkel et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Highly multiplexed and quantitative cell-surface protein profiling using genetically barcoded antibodies
- (2018) Samuel B. Pollock et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Nanodroplet processing platform for deep and quantitative proteome profiling of 10–100 mammalian cells
- (2018) Ying Zhu et al. Nature Communications
- Deep Profiling of Mouse Splenic Architecture with CODEX Multiplexed Imaging
- (2018) Yury Goltsev et al. CELL
- RNA velocity of single cells
- (2018) Gioele La Manno et al. NATURE
- Multiplexed protein maps link subcellular organization to cellular states
- (2018) Gabriele Gut et al. SCIENCE
- Live single cell mass spectrometry reveals cancer‐specific metabolic profiles of circulating tumor cells
- (2018) Yasmine Abouleila et al. CANCER SCIENCE
- Highly parallel single-molecule identification of proteins in zeptomole-scale mixtures
- (2018) Jagannath Swaminathan et al. NATURE BIOTECHNOLOGY
- Simultaneous epitope and transcriptome measurement in single cells
- (2017) Marlon Stoeckius et al. NATURE METHODS
- Quantitative proteomics: challenges and opportunities in basic and applied research
- (2017) Olga T Schubert et al. Nature Protocols
- A subcellular map of the human proteome
- (2017) Peter J. Thul et al. SCIENCE
- An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes
- (2017) Dorte B. Bekker-Jensen et al. Cell Systems
- Mass Spectrometry Applied to Bottom-Up Proteomics: Entering the High-Throughput Era for Hypothesis Testing
- (2016) Ludovic C. Gillet et al. Annual Review of Analytical Chemistry
- TRPV1 structures in nanodiscs reveal mechanisms of ligand and lipid action
- (2016) Yuan Gao et al. NATURE
- Proteome-wide profiling of protein assemblies by cross-linking mass spectrometry
- (2015) Fan Liu et al. NATURE METHODS
- DIA mass spectrometry
- (2015) Allison Doerr NATURE METHODS
- Dynamic profiling of the protein life cycle in response to pathogens
- (2015) M. Jovanovic et al. SCIENCE
- A Theoretical Justification for Single Molecule Peptide Sequencing
- (2015) Jagannath Swaminathan et al. PLoS Computational Biology
- Single-cell in situ RNA profiling by sequential hybridization
- (2014) Eric Lubeck et al. NATURE METHODS
- Cancer Cell Profiling by Barcoding Allows Multiplexed Protein Analysis in Fine-Needle Aspirates
- (2014) A. V. Ullal et al. Science Translational Medicine
- Protein Analysis by Shotgun/Bottom-up Proteomics
- (2013) Yaoyang Zhang et al. CHEMICAL REVIEWS
- Immunofluorescence and fluorescent-protein tagging show high correlation for protein localization in mammalian cells
- (2013) Charlotte Stadler et al. NATURE METHODS
- Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
- (2013) Jason D Buenrostro et al. NATURE METHODS
- Photocleavable DNA Barcode–Antibody Conjugates Allow Sensitive and Multiplexed Protein Analysis in Single Cells
- (2012) Sarit S. Agasti et al. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
- On the Scalability and Requirements of Whole Protein Mass Spectrometry
- (2011) Philip D. Compton et al. ANALYTICAL CHEMISTRY
- Global quantification of mammalian gene expression control
- (2011) Björn Schwanhäusser et al. NATURE
- Homogeneous antibody-based proximity extension assays provide sensitive and specific detection of low-abundant proteins in human blood
- (2011) Martin Lundberg et al. NUCLEIC ACIDS RESEARCH
- Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells
- (2010) Y. Taniguchi et al. SCIENCE
- Visualizing Spatiotemporal Dynamics of Multicellular Cell-Cycle Progression
- (2008) Asako Sakaue-Sawano et al. CELL
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