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Title: Nanowell-mediated two-dimensional liquid chromatography enables deep proteome profiling of <1000 mammalian cells

Journal Article · · Chemical Science
DOI:https://doi.org/10.1039/C8SC02680G· OSTI ID:1503526

Miniaturized multidimensional peptide separations can greatly increase the coverage in proteome profiling for trace samples.

Research Organization:
Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
Sponsoring Organization:
USDOE
DOE Contract Number:
AC05-76RL01830
OSTI ID:
1503526
Report Number(s):
PNNL-SA-133217; CSHCBM
Journal Information:
Chemical Science, Vol. 9, Issue 34; ISSN 2041-6520
Publisher:
Royal Society of Chemistry
Country of Publication:
United States
Language:
English

References (49)

Integrated Droplet Analysis System with Electrospray Ionization-Mass Spectrometry Using a Hydrophilic Tongue-Based Droplet Extraction Interface journal October 2010
Ultra-High-Pressure RPLC Hyphenated to an LTQ-Orbitrap Velos Reveals a Linear Relation between Peak Capacity and Number of Identified Peptides journal April 2011
Miniaturization of a Homogeneous Fluorescence Immunoassay Based on Energy Transfer Using Nanotiter Plates as High-Density Sample Carriers journal November 2001
Droplet-based compartmentalization of chemically separated components in two-dimensional separations journal January 2009
High-Efficiency On-Line Solid-Phase Extraction Coupling to 15−150-μm-i.d. Column Liquid Chromatography for Proteomic Analysis journal July 2003
Reaching for the deep proteome: Recent nano liquid chromatography coupled with tandem mass spectrometry-based studies on the deep proteome journal November 2012
High-Resolution Droplet-Based Fractionation of Nano-LC Separations onto Microarrays for MALDI-MS Analysis journal May 2014
Automated 20 kpsi RPLC-MS and MS/MS with Chromatographic Peak Capacities of 1000−1500 and Capabilities in Proteomics and Metabolomics journal May 2005
An off-line high pH reversed-phase fractionation and nano-liquid chromatography–mass spectrometry method for global proteomic profiling of cell lines journal January 2015
Compartmentalization of Chemically Separated Components into Droplets journal January 2009
Interfacing Droplet Microfluidics with Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry: Label-Free Content Analysis of Single Droplets journal January 2013
2016 update of the PRIDE database and its related tools journal November 2015
A Nano LC-MALDI Mass Spectrometry Droplet Interface for the Analysis of Complex Protein Samples journal May 2013
Identification of a Putative Protein Profile Associated with Tamoxifen Therapy Resistance in Breast Cancer journal March 2009
Spatially Resolved Proteome Mapping of Laser Capture Microdissected Tissue with Automated Sample Transfer to Nanodroplets journal June 2018
Robust, Sensitive, and Automated Phosphopeptide Enrichment Optimized for Low Sample Amounts Applied to Primary Hippocampal Neurons journal December 2016
Minireview: Transcriptional Regulation in Pancreatic Development journal March 2005
Proteomic Analysis of Single Mammalian Cells Enabled by Microfluidic Nanodroplet Sample Preparation and Ultrasensitive NanoLC-MS journal June 2018
The Perseus computational platform for comprehensive analysis of (prote)omics data journal June 2016
State-of-the-art in fast liquid chromatography–mass spectrometry for bio-analytical applications journal May 2013
Reversed-Phase-Reversed-Phase Liquid Chromatography Approach with High Orthogonality for Multidimensional Separation of Phosphopeptides journal January 2010
Development of Mass Spectrometry-Based Shotgun Method for Proteome Analysis of 500 to 5000 Cancer Cells journal March 2010
NanoLC-FT-ICR MS improves proteome coverage attainable for ∼3000 laser-microdissected breast carcinoma cells journal January 2007
Nanodroplet processing platform for deep and quantitative proteome profiling of 10–100 mammalian cells journal February 2018
High Recovery FASP Applied to the Proteomic Analysis of Microdissected Formalin Fixed Paraffin Embedded Cancer Tissues Retrieves Known Colon Cancer Markers journal July 2011
Quantitative analysis of cell composition and purity of human pancreatic islet preparations journal August 2010
Mass spectrometry–based proteomics turns quantitative journal September 2005
Dilution-Free Analysis from Picoliter Droplets by Nano-Electrospray Ionization Mass Spectrometry journal September 2009
Coupling ultra high-pressure liquid chromatography with mass spectrometry: Constraints and possible applications journal May 2013
Simple and Integrated Spintip-Based Technology Applied for Deep Proteome Profiling journal April 2016
A “Proteomic Ruler” for Protein Copy Number and Concentration Estimation without Spike-in Standards journal September 2014
Proteome sequencing goes deep journal February 2015
High-Efficiency, Two-Dimensional Separations of Protein Digests on Microfluidic Devices journal August 2003
The MaxQuant computational platform for mass spectrometry-based shotgun proteomics journal October 2016
Mass spectrometry-based proteomics: existing capabilities and future directions journal January 2012
Comparative evaluation of mass spectrometry platforms used in large-scale proteomics investigations journal August 2005
Reversed-phase chromatography with multiple fraction concatenation strategy for proteome profiling of human MCF10A cells journal April 2011
An Integrated Platform for Isolation, Processing, and Mass Spectrometry-based Proteomic Profiling of Rare Cells in Whole Blood journal March 2015
The challenge of the proteome dynamic range and its implications for in-depth proteomics journal March 2013
Subnanogram proteomics: Impact of LC column selection, MS instrumentation and data analysis strategy on proteome coverage for trace samples journal April 2018
High-pH reversed-phase chromatography with fraction concatenation for 2D proteomic analysis journal April 2012
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources journal December 2008
Loss-less Nano-fractionator for High Sensitivity, High Coverage Proteomics journal January 2017
2016 update of the PRIDE database and its related tools journal September 2016
Compartmentalization of Chemically Separated Components into Droplets journal January 2009
Proteomic Analysis of Single Mammalian Cells Enabled by Microfluidic Nanodroplet Sample Preparation and Ultrasensitive NanoLC-MS journal June 2018
Spatial proteomics: a powerful discovery tool for cell biology journal January 2019
Dilution-Free Analysis from Picoliter Droplets by Nano-Electrospray Ionization Mass Spectrometry journal September 2009
A Nano LC-MALDI Mass Spectrometry Droplet Interface for the Analysis of Complex Protein Samples text January 2013

Cited By (4)

Proteome analysis of tissues by mass spectrometry journal August 2019
Nanowell-mediated multidimensional separations combining nanoLC with SLIM IM-MS for rapid, high-peak-capacity proteomic analyses journal November 2018
New mass spectrometry technologies contributing towards comprehensive and high throughput omics analyses of single cells journal January 2019
The role of proteomics in assessing beta-cell dysfunction and death in type 1 diabetes journal June 2019