FLASHApp: Interactive Data Analysis and Visualization for Top-Down Proteomics

FLASHApp: Interactive Data Analysis and Visualization for Top-Down Proteomics | Authorea try { document.documentElement.classList.add('js'); } catch (e) { } var _gaq = _gaq || []; _gaq.push(['_setAccount', 'G-8VDV14Y67G']); _gaq.push(['_trackPageview']); (function() { var ga = document.createElement('script'); ga.type = 'text/javascript'; ga.async = true; ga.src = ('https:' == document.location.protocol ? 'https://ssl' : 'http://www') + '.google-analytics.com/ga.js'; var s = document.getElementsByTagName('script')[0]; s.parentNode.insertBefore(ga, s); })(); Skip to main content Preprints Collections Wiley Open Research IET Open Research Ecological Society of Japan All Collections About About Authorea FAQs Contact Us Quick Search anywhere Search for preprint articles, keywords, etc. Search Search ADVANCED SEARCH SCROLL PROTEOMICS This is a preprint and has not been peer reviewed. Data may be preliminary. 17 April 2025 V1 Latest version Share on FLASHApp: Interactive Data Analysis and Visualization for Top-Down Proteomics Authors : Tom Müller 0000-0003-0118-9434 , Jihyung Kim , Andrew Almaguer , Ayesha Feroz 0009-0006-5719-7408 , Jaekwan Kim , Axel Walter , Wonhyeuk Jung , Oliver Kohlbacher , and Kyowon Jeong 0000-0003-3776-3098 [email protected] Authors Info & Affiliations https://doi.org/10.22541/au.174488404.48328122/v1 Published PROTEOMICS Version of record Peer review timeline 709 views 284 downloads Contents Abstract Supplementary Material Information & Authors Metrics & Citations View Options References Figures Tables Media Share Abstract Top-down proteomics (TDP) is increasingly being applied in proteoform-resolved biomedical and clinical research. However, the complexity of TDP data demands flexible visualization tools integrated with analysis workflows to streamline interpretation and validation. Existing tools lack adaptability and interactivity, often requiring researchers to invest considerable resources on additional manual processing and analysis to generate publication-ready results and figures. This added layer of manual intervention impacts reproducibility, posing a significant challenge to consistent scientific outcomes. FLASHApp addresses these challenges by offering a web-based, platform-independent application for TDP data analysis and visualization. It integrates key tools like FLASHDeconv, featuring automated processing, interactive publication-ready visualizations, and direct team collaboration via shareable URLs. FLASHApp is open-source software as part of OpenMS and available at https://www.openms.org/FLASHApp/. Supplementary Material File (figure1.ppt) Download 838.50 KB File (figure2.ppt) Download 1003.00 KB File (main text.docx) Download 1.46 MB File (supplementaryfigure1.ppt) Download 598.50 KB File (supplementaryfigure2.ppt) Download 550.00 KB File (supplementaryfigure3.ppt) Download 560.00 KB File (table1.docx) Download 9.11 KB Information & Authors Information Version history V1 Version 1 17 April 2025 Peer review timeline Published PROTEOMICS Version of Record 21 Sep 2025 Published Copyright This work is licensed under a Non Exclusive No Reuse License. Collection PROTEOMICS Keywords openms web applications Authors Affiliations Tom Müller 0000-0003-0118-9434 University of Tübingen View all articles by this author Jihyung Kim University of Tübingen View all articles by this author Andrew Almaguer jambit GmbH View all articles by this author Ayesha Feroz 0009-0006-5719-7408 University of Tübingen View all articles by this author Jaekwan Kim Fullseeomics View all articles by this author Axel Walter University of Tübingen View all articles by this author Wonhyeuk Jung Astrazeneca View all articles by this author Oliver Kohlbacher University of Tübingen View all articles by this author Kyowon Jeong 0000-0003-3776-3098 [email protected] University of Tübingen View all articles by this author Metrics & Citations Metrics Article Usage 709 views 284 downloads .FvxKWukQNSOunydq8rnd { width: 100px; } Citations Download citation Tom Müller, Jihyung Kim, Andrew Almaguer, et al. FLASHApp: Interactive Data Analysis and Visualization for Top-Down Proteomics. Authorea . 17 April 2025. DOI: https://doi.org/10.22541/au.174488404.48328122/v1 If you have the appropriate software installed, you can download article citation data to the citation manager of your choice. Simply select your manager software from the list below and click Download. For more information or tips please see 'Downloading to a citation manager' in the Help menu . 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