ArticleJournal of the American Society for Mass Spectrometry2009
HD desktop: an integrated platform for the analysis and visualization of H/D exchange data.
Article in Journal of the American Society for Mass Spectrometry, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 59 papers.
What it found
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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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
59 citing papers in PubMed.
- Probing protein-lipid interactions by hydrogen/deuterium exchange-mass spectrometry: advances, challenges and future directions.Chemical science · 2026Review
- Advances in Hydrogen/Deuterium Exchange Mass Spectrometry and the Pursuit of Challenging Biological Systems.Chemical reviews · 2022Review
- Mechanical coupling in the nitrogenase complex.PLoS computational biology · 2021Article
- HDX-MS: An Analytical Tool to Capture Protein Motion in Action.Biomedicines · 2020Review
- Mass Spectrometry-Based Protein Footprinting for Higher-Order Structure Analysis: Fundamentals and Applications.Chemical reviews · 2020Review
- Computational methods in mass spectrometry-based structural proteomics for studying protein structure, dynamics, and interactions.Computational and structural biotechnology journal · 2020Review
- A Decoupled Automation Platform for Hydrogen/Deuterium Exchange Mass Spectrometry Experiments.Journal of the American Society for Mass Spectrometry · 2019Article
- Comparing Hydrogen Deuterium Exchange and Fast Photochemical Oxidation of Proteins: a Structural Characterisation of Wild-Type and ΔN6 βJournal of the American Society for Mass Spectrometry · 2018Article
- Structural characterization of the catalytic γ and regulatory β subunits of phosphorylase kinase in the context of the hexadecameric enzyme complex.Protein science : a publication of the Protein Society · 2018Article
- The Role of Mass Spectrometry in Structural Studies of Flavin-Based Electron Bifurcating Enzymes.Frontiers in microbiology · 2018Review
- MinE conformational dynamics regulate membrane binding, MinD interaction, and Min oscillation.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- Protein Footprinting Comes of Age: Mass Spectrometry for Biophysical Structure Assessment.Molecular & cellular proteomics : MCP · 2017Review
- The Area Between Exchange Curves as a Measure of Conformational Differences in Hydrogen-Deuterium Exchange Mass Spectrometry Studies.Journal of the American Society for Mass Spectrometry · 2017Article
- Proteolysis by Granzyme B Enhances Presentation of Autoantigenic Peptidylarginine Deiminase 4 Epitopes in Rheumatoid Arthritis.Journal of proteome research · 2017Article
- MEMHDX: an interactive tool to expedite the statistical validation and visualization of large HDX-MS datasets.Bioinformatics (Oxford, England) · 2016Article
- Protein Structural Analysis via Mass Spectrometry-Based Proteomics.Advances in experimental medicine and biology · 2016Review
- Software Analysis of Uncorrelated MS1 Peaks for Discovery of Post-Translational Modifications.Journal of the American Society for Mass Spectrometry · 2015Article
- HDX match software for the data analysis of top-down ECD-FTMS hydrogen/deuterium exchange experiments.Journal of the American Society for Mass Spectrometry · 2015Article
- Structural mechanism for signal transduction in RXR nuclear receptor heterodimers.Nature communications · 2015Article
- A crystal structure of the Dengue virus NS5 protein reveals a novel inter-domain interface essential for protein flexibility and virus replication.PLoS pathogens · 2015Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Here we describe an integrated software platform titled HD Desktop designed specifically to enhance the analysis of hydrogen/deuterium exchange (HDX) mass spectrometry data. HD Desktop integrates tools for data extraction with visualization components within a single web-based application. The interface design enables users to navigate from the peptide view to the sample and experiment levels, tracking all manipulations while updating the aggregate graphs in real time. HD Desktop is integrated with a relational database designed to provide performance enhancements, as well as a robust model for data storage and retrieval. Additional features of the software include retention time determination, which is achieved with the use of theoretical isotope fitting; here, we assume that the best theoretical fit will occur at the correct retention time for any given peptide. Peptide data consolidation for the rendering of data in 2D was realized by automating known and novel approaches. Designed to address broad needs of the HDX community, the platform presented here provides an efficient and manageable workflow for HDX data analysis and is freely available as a web tool at the project home page http://hdx.florida.scripps.edu.
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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.