ArticleJournal of proteome research2016
Characterization of Proteoforms with Unknown Post-translational Modifications Using the MIScore.
Article in Journal of proteome research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 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
15 citing papers in PubMed, 24 citations in OpenAlex.
- Deep Plasma Proteomics with Data-Independent Acquisition: Clinical Study Protocol Optimization with a COVID-19 Cohort.Journal of proteome research · 2024Article
- Top-down proteomics.Nature reviews. Methods primers · 2024Article
- Characterization of Proteoform Post-Translational Modifications by Top-Down and Bottom-Up Mass Spectrometry in Conjunction with Annotations.Journal of proteome research · 2023Article
- Large-scale top-down proteomics of the Arabidopsis thaliana leaf and chloroplast proteomes.Proteomics · 2023Article
- TopMSV: A Web-Based Tool for Top-Down Mass Spectrometry Data Visualization.Journal of the American Society for Mass Spectrometry · 2021Article
- Proteoform Identification by Combining RNA-Seq and Top-Down Mass Spectrometry.Journal of proteome research · 2021Article
- Integrating Top-Down and Bottom-Up Mass Spectrometric Strategies for Proteomic Profiling of Iranian Saw-Scaled Viper,Journal of proteome research · 2021Article
- TopPIC Gateway: A Web Gateway for Top-Down Mass Spectrometry Data Interpretation.PEARC20 : Practice and Experience in Advanced Research Computing 2020 : Catch the wave : July 27-31, 2020, Portland, Or Virtual Conference. Practice and Experience in Advanced Research Computing (Conference) (2020 : Online) · 2020Article
- Review
- A Markov Chain Monte Carlo Method for Estimating the Statistical Significance of Proteoform Identifications by Top-Down Mass Spectrometry.Journal of proteome research · 2019Article
- Top-down Mass Spectrometry Analysis of Human Serum Autoantibody Antigen-Binding Fragments.Scientific reports · 2019Article
- Spatially-Resolved Top-down Proteomics Bridged to MALDI MS Imaging Reveals the Molecular Physiome of Brain Regions.Molecular & cellular proteomics : MCP · 2018Article
- Expanding Proteoform Identifications in Top-Down Proteomic Analyses by Constructing Proteoform Families.Analytical chemistry · 2018Article
- Top-Down Proteomics: Ready for Prime Time?Analytical chemistry · 2018Review
- TopPIC: a software tool for top-down mass spectrometry-based proteoform identification and characterization.Bioinformatics (Oxford, England) · 2016Article
Corrections and comments
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Authors and funding
7 authors at 5 institutions in 1 country.
Funding
Abstract
Various proteoforms may be generated from a single gene due to primary structure alterations (PSAs) such as genetic variations, alternative splicing, and post-translational modifications (PTMs). Top-down mass spectrometry is capable of analyzing intact proteins and identifying patterns of multiple PSAs, making it the method of choice for studying complex proteoforms. In top-down proteomics, proteoform identification is often performed by searching tandem mass spectra against a protein sequence database that contains only one reference protein sequence for each gene or transcript variant in a proteome. Because of the incompleteness of the protein database, an identified proteoform may contain unknown PSAs compared with the reference sequence. Proteoform characterization is to identify and localize PSAs in a proteoform. Although many software tools have been proposed for proteoform identification by top-down mass spectrometry, the characterization of proteoforms in identified proteoform-spectrum matches still relies mainly on manual annotation. We propose to use the Modification Identification Score (MIScore), which is based on Bayesian models, to automatically identify and localize PTMs in proteoforms. Experiments showed that the MIScore is accurate in identifying and localizing one or two modifications.
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Registered trials
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.