{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,29]],"date-time":"2026-01-29T08:06:29Z","timestamp":1769673989848,"version":"3.49.0"},"reference-count":5,"publisher":"Oxford University Press (OUP)","issue":"17","license":[{"start":{"date-parts":[[2022,7,20]],"date-time":"2022-07-20T00:00:00Z","timestamp":1658275200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100004837","name":"Spanish Ministry of Science and Innovation","doi-asserted-by":"publisher","award":["PID2019-105566GB-I00"],"award-info":[{"award-number":["PID2019-105566GB-I00"]}],"id":[{"id":"10.13039\/501100004837","id-type":"DOI","asserted-by":"publisher"}]},{"name":"LifeHUB Research Network"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,9,2]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Summary<\/jats:title><jats:p>TiFoSi (Tissues\u2002Forces &amp;\u2002Signaling) is an efficient computational tool for performing mechanobiology simulations of planar epithelia. A drawback of this tool is that it relies on an XML configuration file (input data) that can be cumbersome to set up and\/or decode due to the endless possibilities of the software. Moreover, some modeling know-how is needed in order to provide equations that describe gene regulatory interactions. These factors limit the usability of this tool for users with a weak computational and\/or mathematical background. Here, we introduce ANISE (grAphical coNfigurator of TiFoSi\u2002In\u2002Silico\u2002Experiments), a web-app that allows to easily setup the configuration of mechanobiology simulations using TiFoSi. The application covers all the configuration modules in TiFoSi comprehensively (from basic to advanced editing options) and uses a graphical approach (e.g. to build the modeling equations of gene regulatory networks).<\/jats:p><\/jats:sec><jats:sec><jats:title>Availability and implementation<\/jats:title><jats:p>http:\/\/github.com\/lsym-uveg\/anise (server: http:\/\/lsymserver.uv.es\/lsym\/ANISE).<\/jats:p><\/jats:sec>","DOI":"10.1093\/bioinformatics\/btac511","type":"journal-article","created":{"date-parts":[[2022,7,20]],"date-time":"2022-07-20T13:08:57Z","timestamp":1658322537000},"page":"4246-4247","source":"Crossref","is-referenced-by-count":4,"title":["<i>ANISE<\/i>: an application to design mechanobiology simulations of planar epithelia"],"prefix":"10.1093","volume":"38","author":[{"given":"\u00c1ngel","family":"Rodr\u00edguez Cerro","sequence":"first","affiliation":[{"name":"Instituto de Rob\u00f3tica y de Tecnolog\u00edas de la Informaci\u00f3n y la Comunicaci\u00f3n (IRTIC), Universitat de Val\u00e8ncia, C\/Catedr\u00e1tico Jos\u00e9 Beltr\u00e1n , 2 46980 Paterna (Valencia), Spain"}]},{"given":"Sergio","family":"Sancho","sequence":"additional","affiliation":[{"name":"Instituto de Rob\u00f3tica y de Tecnolog\u00edas de la Informaci\u00f3n y la Comunicaci\u00f3n (IRTIC), Universitat de Val\u00e8ncia, C\/Catedr\u00e1tico Jos\u00e9 Beltr\u00e1n , 2 46980 Paterna (Valencia), Spain"}]},{"given":"M\u00edriam","family":"Rodr\u00edguez","sequence":"additional","affiliation":[{"name":"Instituto de Rob\u00f3tica y de Tecnolog\u00edas de la Informaci\u00f3n y la Comunicaci\u00f3n (IRTIC), Universitat de Val\u00e8ncia, C\/Catedr\u00e1tico Jos\u00e9 Beltr\u00e1n , 2 46980 Paterna (Valencia), Spain"}]},{"given":"Miguel A","family":"Gam\u00f3n","sequence":"additional","affiliation":[{"name":"Instituto de Rob\u00f3tica y de Tecnolog\u00edas de la Informaci\u00f3n y la Comunicaci\u00f3n (IRTIC), Universitat de Val\u00e8ncia, C\/Catedr\u00e1tico Jos\u00e9 Beltr\u00e1n , 2 46980 Paterna (Valencia), Spain"}]},{"given":"L\u00e9na","family":"Guitou","sequence":"additional","affiliation":[{"name":"Institute for Integrative Systems Biology (I2SysBio), CSIC-UV, C\/Catedr\u00e1tico Agust\u00edn Escardino Benlloch , 9 46980 Paterna (Valencia), Spain"}]},{"given":"Rafael J","family":"Mart\u00ednez","sequence":"additional","affiliation":[{"name":"Instituto de Rob\u00f3tica y de Tecnolog\u00edas de la Informaci\u00f3n y la Comunicaci\u00f3n (IRTIC), Universitat de Val\u00e8ncia, C\/Catedr\u00e1tico Jos\u00e9 Beltr\u00e1n , 2 46980 Paterna (Valencia), Spain"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1791-0011","authenticated-orcid":false,"given":"Javier","family":"Buceta","sequence":"additional","affiliation":[{"name":"Institute for Integrative Systems Biology (I2SysBio), CSIC-UV, C\/Catedr\u00e1tico Agust\u00edn Escardino Benlloch , 9 46980 Paterna (Valencia), Spain"}]}],"member":"286","published-online":{"date-parts":[[2022,7,20]]},"reference":[{"key":"2023041408445840500_","doi-asserted-by":"crossref","first-page":"5111","DOI":"10.1529\/biophysj.108.133306","article-title":"A spatial toggle switch drives boundary formation in development","volume":"95","author":"Canela-Xandri","year":"2008","journal-title":"Biophys. J"},{"key":"2023041408445840500_","doi-asserted-by":"crossref","first-page":"4525","DOI":"10.1093\/bioinformatics\/btaa592","article-title":"TiFoSi: an efficient tool for mechanobiology simulations of epithelia","volume":"36","author":"Canela-Xandri","year":"2020","journal-title":"Bioinformatics"},{"key":"2023041408445840500_","doi-asserted-by":"crossref","first-page":"743","DOI":"10.1038\/nrm.2017.98","article-title":"Mechanobiology of collective cell behaviours","volume":"18","author":"Ladoux","year":"2017","journal-title":"Nat. Rev. Mol. Cell Biol"},{"key":"2023041408445840500_","doi-asserted-by":"crossref","first-page":"R441","DOI":"10.1016\/j.cub.2012.04.038","article-title":"Developmental biology: a growing role for computer simulations","volume":"22","author":"Schwarz","year":"2012","journal-title":"Curr. 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