Large‐scale top‐down proteomics of the Arabidopsis thaliana leaf and chloroplast proteomes
Sign Up to like & getrecommendations! Published in 2022 at "PROTEOMICS"
DOI: 10.1002/pmic.202100377
Abstract: We present a large‐scale top‐down proteomics (TDP) study of plant leaf and chloroplast proteins, achieving the identification of over 4700 unique proteoforms. Using capillary zone electrophoresis coupled with tandem mass spectrometry analysis of offline size‐exclusion… read more here.
Keywords: large scale; top proteomics; scale top; leaf chloroplast ... See more keywords
The benefits (and misfortunes) of SDS in top-down proteomics.
Sign Up to like & getrecommendations! Published in 2018 at "Journal of proteomics"
DOI: 10.1016/j.jprot.2017.03.002
Abstract: Top-down proteomics (TDP) has great potential for high throughput proteoform characterization. With significant advances in mass spectrometry (MS) instrumentation permitting tandem MS of large intact proteins, a limitation to the widespread adoption of TDP still… read more here.
Keywords: misfortunes sds; intact proteins; proteomics benefits; top proteomics ... See more keywords
Sensitive Top-Down Proteomics Analysis of a Low Number of Mammalian Cells Using a Nanodroplet Sample Processing Platform.
Sign Up to like & getrecommendations! Published in 2020 at "Analytical chemistry"
DOI: 10.1021/acs.analchem.0c00467
Abstract: Top-down proteomics is a powerful tool for characterizing genetic variations and post-translational modifications at intact protein level. However, one significant technical gap of top-down proteomics is the inability to analyze a low amount of biological… read more here.
Keywords: sample; proteomics analysis; sensitive top; platform ... See more keywords
Size-Based Proteome Fractionation through Polyacrylamide Gel Electrophoresis Combined with LC-FAIMS-MS for In-Depth Top-Down Proteomics.
Sign Up to like & getrecommendations! Published in 2022 at "Analytical chemistry"
DOI: 10.1021/acs.analchem.2c02777
Abstract: The combination of liquid chromatography (LC) and gas-phase separation by field-asymmetric ion mobility spectrometry (FAIMS) is a powerful proteoform separation system for top-down proteomics. Here, we present an in-depth top-down proteomics workflow, GeLC-FAIMS-MS, in which… read more here.
Keywords: top proteomics; polyacrylamide gel; fractionation; based proteome ... See more keywords
Capillary HILIC-MS: A New Tool for Sensitive Top-Down Proteomics
Sign Up to like & getrecommendations! Published in 2018 at "Analytical Chemistry"
DOI: 10.1021/acs.analchem.8b00382
Abstract: Recent progress in top-down proteomics has driven the demand for chromatographic methods compatible with mass spectrometry (MS) that can separate intact proteins. Hydrophilic interaction liquid chromatography (HILIC) has recently shown good potential for the characterization… read more here.
Keywords: new tool; capillary hilic; tool sensitive; analysis ... See more keywords
MASH Explorer: A Universal Software Environment for Top-Down Proteomics.
Sign Up to like & getrecommendations! Published in 2020 at "Journal of proteome research"
DOI: 10.1021/acs.jproteome.0c00469
Abstract: Top-down mass spectrometry (MS)-based proteomics enables a comprehensive analysis of proteoforms with molecular specificity to achieve a proteome-wide understanding of protein functions. However, the lack of a universal software for top-down proteomics is becoming increasingly… read more here.
Keywords: top proteomics; universal software; explorer universal; mash explorer ... See more keywords
Validation of Top-Down Proteomics Data by Bottom-Up-Based N-Terminomics Reveals Pitfalls in Top-Down-Based Terminomics Workflows.
Sign Up to like & getrecommendations! Published in 2022 at "Journal of proteome research"
DOI: 10.1021/acs.jproteome.2c00277
Abstract: Bottom-up proteomics (BUP)-based N-terminomics techniques have become standard to identify protein N-termini. While these methods rely on the identification of N-terminal peptides only, top-down proteomics (TDP) comes with the promise to provide additional information about… read more here.
Keywords: top proteomics; proteomics data; data bottom; based terminomics ... See more keywords
TopPICR: A Companion R Package for Top-Down Proteomics Data Analysis.
Sign Up to like & getrecommendations! Published in 2023 at "Journal of proteome research"
DOI: 10.1021/acs.jproteome.2c00570
Abstract: Top-down proteomics is the analysis of proteins in their intact form without proteolysis, thus preserving valuable information about post-translational modifications, isoforms, and proteolytic processing. However, it is still a developing field due to limitations in… read more here.
Keywords: top proteomics; toppicr; companion package; data analysis ... See more keywords
Defining the Sarcomeric Proteoform Landscape in Ischemic Cardiomyopathy by Top-Down Proteomics.
Sign Up to like & getrecommendations! Published in 2023 at "Journal of proteome research"
DOI: 10.1021/acs.jproteome.2c00729
Abstract: Ischemic cardiomyopathy (ICM) is a prominent form of heart failure, but the molecular mechanisms underlying ICM remain relatively understudied due to marked phenotypic heterogeneity. Alterations in post-translational modifications (PTMs) and isoform switches in sarcomeric proteins… read more here.
Keywords: icm; top proteomics; sarcomeric proteoform; proteoform landscape ... See more keywords
Quantitative Top-Down Proteomics in Complex Samples Using Protein-Level Tandem Mass Tag Labeling.
Sign Up to like & getrecommendations! Published in 2021 at "Journal of the American Society for Mass Spectrometry"
DOI: 10.1021/jasms.0c00464
Abstract: Labeling approaches using isobaric chemical tags (e.g., isobaric tagging for relative and absolute quantification, iTRAQ and tandem mass tag, TMT) have been widely applied for the quantification of peptides and proteins in bottom-up MS. However,… read more here.
Keywords: mass tag; mass; protein level; complex samples ... See more keywords
Informed-Proteomics: Open Source Software Package for Top-down Proteomics
Sign Up to like & getrecommendations! Published in 2017 at "Nature methods"
DOI: 10.1038/nmeth.4388
Abstract: Top-down proteomics, the analysis of intact proteins in their endogenous form, preserves valuable information about post-translation modifications, isoforms and proteolytic processing. The quality of top-down liquid chromatography–tandem MS (LC-MS/MS) data sets is rapidly increasing on… read more here.
Keywords: source software; informed proteomics; proteomics open; top proteomics ... See more keywords