{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,12,31]],"date-time":"2025-12-31T11:21:39Z","timestamp":1767180099608,"version":"build-2238731810"},"update-to":[{"DOI":"10.1371\/journal.pcbi.1012607","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2024,12,2]],"date-time":"2024-12-02T00:00:00Z","timestamp":1733097600000}}],"reference-count":52,"publisher":"Public Library of Science (PLoS)","issue":"11","license":[{"start":{"date-parts":[[2024,11,18]],"date-time":"2024-11-18T00:00:00Z","timestamp":1731888000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["62272065 and 62002051"],"award-info":[{"award-number":["62272065 and 62002051"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Guangxi Natural Science Foundation","award":["2024GXNSFBA010372"],"award-info":[{"award-number":["2024GXNSFBA010372"]}]}],"content-domain":{"domain":["www.ploscompbiol.org"],"crossmark-restriction":false},"short-container-title":["PLoS Comput Biol"],"abstract":"<jats:p>\n                    Protein phosphorylation is essential in various signal transduction and cellular processes. To date, most tools are designed for model organisms, but only a handful of methods are suitable for predicting task in fungal species, and their performance still leaves much to be desired. In this study, a novel tool called MFPSP is developed for phosphorylation site prediction in multi-fungal species. The amino acids sequence features were derived from physicochemical and distributed information, and an offspring competition-based genetic algorithm was applied for choosing the most effective feature subset. The comparison results shown that MFPSP achieves a more advanced and balanced performance to several state-of-the-art available toolkits. Feature contribution and interaction exploration indicating the proposed model is efficient in uncovering concealed patterns within sequence. We anticipate MFPSP to serve as a valuable bioinformatics tool and benefiting practical experiments by pre-screening potential phosphorylation sites and enhancing our functional understanding of phosphorylation modifications in fungi. The source code and datasets are accessible at\n                    <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"https:\/\/github.com\/AI4HKB\/MFPSP\/\" xlink:type=\"simple\">https:\/\/github.com\/AI4HKB\/MFPSP\/<\/jats:ext-link>\n                    .\n                  <\/jats:p>","DOI":"10.1371\/journal.pcbi.1012607","type":"journal-article","created":{"date-parts":[[2024,11,18]],"date-time":"2024-11-18T13:37:32Z","timestamp":1731937052000},"page":"e1012607","update-policy":"https:\/\/doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":1,"title":["MFPSP: Identification of fungal species-specific phosphorylation site using offspring competition-based genetic algorithm"],"prefix":"10.1371","volume":"20","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-4649-3176","authenticated-orcid":true,"given":"Chao","family":"Wang","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Quan","family":"Zou","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2024,11,18]]},"reference":[{"issue":"24","key":"pcbi.1012607.ref001","doi-asserted-by":"crossref","first-page":"3909","DOI":"10.1093\/bioinformatics\/btx496","article-title":"MusiteDeep: a deep-learning framework for general and kinase-specific phosphorylation site prediction","volume":"33","author":"DL Wang","year":"2017","journal-title":"Bioinformatics"},{"issue":"3","key":"pcbi.1012607.ref002","doi-asserted-by":"crossref","first-page":"382","DOI":"10.1038\/s41587-021-01051-x","article-title":"High-throughput functional characterization of protein phosphorylation sites in yeast","volume":"40","author":"C Vieitez","year":"2022","journal-title":"Nature Biotechnology"},{"key":"pcbi.1012607.ref003","volume-title":"Posttranslational modification of proteins: expanding nature\u2019s inventory","author":"C. 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