{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,13]],"date-time":"2026-04-13T06:35:23Z","timestamp":1776062123824,"version":"3.50.1"},"reference-count":13,"publisher":"Oxford University Press (OUP)","issue":"9","license":[{"start":{"date-parts":[[2022,2,21]],"date-time":"2022-02-21T00:00:00Z","timestamp":1645401600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"French National Research Agency [MASSIV","award":["ANR-17-CE12-0009"],"award-info":[{"award-number":["ANR-17-CE12-0009"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,4,28]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Summary<\/jats:title><jats:p>ASES is a versatile tool for assessing the impact of alternative splicing (AS), initiation and termination of transcription on protein diversity in evolution. It identifies exon and transcript orthogroups from a set of input genes\/species for comparative transcriptomics analyses. It computes an evolutionary splicing graph, where the nodes are exon orthogroups, allowing for a direct evaluation of AS conservation. It also reconstructs a transcripts\u2019 phylogenetic forest to date the appearance of specific transcripts and explore the events that have shaped them. ASES web server features a highly interactive interface enabling the synchronous selection of events, exons or transcripts in the different outputs, and the visualization and retrieval of the corresponding amino acid sequences, for subsequent 3D structure prediction.<\/jats:p><\/jats:sec><jats:sec><jats:title>Availability and implementation<\/jats:title><jats:p>http:\/\/www.lcqb.upmc.fr\/Ases.<\/jats:p><\/jats:sec><jats:sec><jats:title>Supplementary information<\/jats:title><jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p><\/jats:sec>","DOI":"10.1093\/bioinformatics\/btac105","type":"journal-article","created":{"date-parts":[[2022,2,18]],"date-time":"2022-02-18T20:11:43Z","timestamp":1645215103000},"page":"2615-2616","source":"Crossref","is-referenced-by-count":5,"title":["ASES: visualizing evolutionary conservation of alternative splicing in proteins"],"prefix":"10.1093","volume":"38","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-4254-9320","authenticated-orcid":false,"given":"Diego Javier","family":"Zea","sequence":"first","affiliation":[{"name":"Laboratoire de Biologie Computationnelle et Quantitative (LCQB), CNRS, IBPS, Sorbonne Universit\u00e9 , 75005 Paris, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7776-1340","authenticated-orcid":false,"given":"Hugues","family":"Richard","sequence":"additional","affiliation":[{"name":"Bioinformatics Unit (MF1), Department for Methods Development and Research Infrastructure, Robert Koch Institute , 13353 Berlin, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4870-6304","authenticated-orcid":false,"given":"Elodie","family":"Laine","sequence":"additional","affiliation":[{"name":"Laboratoire de Biologie Computationnelle et Quantitative (LCQB), CNRS, IBPS, Sorbonne Universit\u00e9 , 75005 Paris, France"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2022,2,21]]},"reference":[{"key":"2023041402545386800_","doi-asserted-by":"crossref","first-page":"2121","DOI":"10.1016\/j.jmb.2020.01.032","article-title":"Transcripts\u2019 evolutionary history and structural dynamics give mechanistic insights into the functional diversity of the jnk family","volume":"432","author":"Ait-Hamlat","year":"2020","journal-title":"J. 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