ArticleAnalytical chemistry2018
Expanding Proteoform Identifications in Top-Down Proteomic Analyses by Constructing Proteoform Families.
Article in Analytical chemistry, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
17 citing papers in PubMed, 27 citations in OpenAlex.
- Intact Mass Proteomics Using a Proteoform Atlas.Journal of proteome research · 2025Article
- Recent Contributions of Proteomics to Our Understanding of Reversible NJournal of proteome research · 2024Review
- Mass Spectrometry-Based Proteomic Technology and Its Application to Study Skeletal Muscle Cell Biology.Cells · 2023Review
- Proteoform Analysis and Construction of Proteoform Families in Proteoform Suite.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Size Exclusion Chromatography Strategies and MASH Explorer for Large Proteoform Characterization.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Automated Assignment of Proteoform Classification Levels.Journal of proteome research · 2021Article
- Mesh Fragmentation Improves Dissociation Efficiency in Top-down Proteomics.Journal of the American Society for Mass Spectrometry · 2021Article
- Construction of Human Proteoform Families from 21 Tesla Fourier Transform Ion Cyclotron Resonance Mass Spectrometry Top-Down Proteomic Data.Journal of proteome research · 2021Article
- Constructing Human Proteoform Families Using Intact-Mass and Top-Down Proteomics with a Multi-Protease Global Post-Translational Modification Discovery Database.Journal of proteome research · 2019Article
- Intact-Mass Analysis Facilitating the Identification of Large Human Heart Proteoforms.Analytical chemistry · 2019Article
- Integration of Metabolomic and Other Omics Data in Population-Based Study Designs: An Epidemiological Perspective.Metabolites · 2019Review
- Review
- Evaluation of linear models and missing value imputation for the analysis of peptide-centric proteomics.BMC bioinformatics · 2019Article
- Maximizing Selective Cleavages at Aspartic Acid and Proline Residues for the Identification of Intact Proteins.Journal of the American Society for Mass Spectrometry · 2019Article
- Launching the C-HPP neXt-CP50 Pilot Project for Functional Characterization of Identified Proteins with No Known Function.Journal of proteome research · 2018Article
- Identification and Quantification of Murine Mitochondrial Proteoforms Using an Integrated Top-Down and Intact-Mass Strategy.Journal of proteome research · 2018Article
- Proteoform Suite: Software for Constructing, Quantifying, and Visualizing Proteoform Families.Journal of proteome research · 2018Article
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
Abstract
In top-down proteomics, intact proteins are analyzed by tandem mass spectrometry and proteoforms, which are defined forms of a protein with specific sequences of amino acids and localized post-translational modifications, are identified using precursor mass and fragmentation data. Many proteoforms that are detected in the precursor scan (MS1) are not selected for fragmentation by the instrument and therefore remain unidentified in typical top-down proteomic workflows. Our laboratory has developed the open source software program Proteoform Suite to analyze MS1-only intact proteoform data. Here, we have adapted it to provide identifications of proteoform masses in precursor MS1 spectra of top-down data, supplementing the top-down identifications obtained using the MS2 fragmentation data. Proteoform Suite performs mass calibration using high-scoring top-down identifications and identifies additional proteoforms using calibrated, accurate intact masses. Proteoform families, the set of proteoforms from a given gene, are constructed and visualized from proteoforms identified by both top-down and intact-mass analyses. Using this strategy, we constructed proteoform families and identified 1861 proteoforms in yeast lysate, yielding an approximately 40% increase over the original 1291 proteoform identifications observed using traditional top-down analysis alone.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.