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Bioinformatic tools for non-bioinformaticians: a roadmap to study unknown microprotein sequences
Umeå University, Faculty of Medicine, Department of Molecular Biology (Faculty of Medicine).
Umeå University, Faculty of Medicine, Department of Molecular Biology (Faculty of Medicine).
2026 (English)In: Methods in Molecular Biology, ISSN 1064-3745, E-ISSN 1940-6029, Vol. 2992, p. 171-180Article in journal (Refereed) Published
Abstract [en]

The identification of unknown microprotein sequences is often presented as a FASTA file with hundreds or thousands of unknown RNA or protein sequences. Then, the researcher needs to gain an overall view of all the sequences and identify which ones may be relevant to address their biological question of interest. In the absence of a bioinformatician or certain computational knowledge, this task becomes increasingly challenging proportionally to the number of sequences identified. In this chapter, we provide a guideline of different publicly available online resources that can be used without any computational background to analyze your sequences' structural and physicochemical properties and identify functional domains and motifs. Moreover, we have developed MicrOracle, a publicly available Shiny app that will integrate the different output files from the online prediction tools and generate interactive plots that can contribute to easily visualizing, understanding, and segmenting your data based on structural and functional criteria.

Place, publisher, year, edition, pages
Springer Nature, 2026. Vol. 2992, p. 171-180
Keywords [en]
Disordered proteins, Domain, Microproteins, Motif, Protein bioinformatics, Shiny app
National Category
Bioinformatics (Computational Biology) Bioinformatics and Computational Biology
Identifiers
URN: urn:nbn:se:umu:diva-246764DOI: 10.1007/978-1-0716-5013-4_12PubMedID: 41241906Scopus ID: 2-s2.0-105021973167OAI: oai:DiVA.org:umu-246764DiVA, id: diva2:2017280
Funder
Swedish Research CouncilAvailable from: 2025-11-28 Created: 2025-11-28 Last updated: 2025-11-28Bibliographically approved

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Gimeno Le Paih, PatriciaAramburu, Iker Valle

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