{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,11,1]],"date-time":"2025-11-01T13:39:44Z","timestamp":1762004384875},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"12","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2012,6,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: The RFMapp is a graphical user interface application based on the RFM (ribosome flow model), enabling the estimation of the translation elongation rates of messenger ribonucleic acids (mRNAs) and the profile of ribosomal densities along the mRNAs, in a computationally efficient way. The RFMapp is based on the approach previously described by Reuveni et al., and unlike other traditional approaches in the field, which are mainly related to the genes' mean codon translation efficiency, the RFM additionally considers the codon order, the ribosomes' size and their order. Thus, it has been shown that RFM outperforms traditional predictors when analyzing both heterologous and endogenous genes.<\/jats:p>\n               <jats:p>Availability and implementation: Distributable cross-platform application and guideline are available for download at: http:\/\/www.cs.tau.ac.il\/~tamirtul\/RFM_Installers\/install.htm<\/jats:p>\n               <jats:p>Contact: \u00a0tamirtul@post.tau.ac.il<\/jats:p>","DOI":"10.1093\/bioinformatics\/bts185","type":"journal-article","created":{"date-parts":[[2012,4,12]],"date-time":"2012-04-12T05:16:27Z","timestamp":1334207787000},"page":"1663-1664","source":"Crossref","is-referenced-by-count":14,"title":["RFMapp: ribosome flow model application"],"prefix":"10.1093","volume":"28","author":[{"given":"Hadas","family":"Zur","sequence":"first","affiliation":[{"name":"1 The Blavatnik School of Computer Science, Faculty of Exact Sciences and 2Department of Biomedical Engineering, Faculty of Engineering, Tel Aviv University, Ramat Aviv 69978, Israel"}]},{"given":"Tamir","family":"Tuller","sequence":"additional","affiliation":[{"name":"1 The Blavatnik School of Computer Science, Faculty of Exact Sciences and 2Department of Biomedical Engineering, Faculty of Engineering, Tel Aviv University, Ramat Aviv 69978, Israel"}]}],"member":"286","published-online":{"date-parts":[[2012,4,11]]},"reference":[{"key":"2023012512341624000_B1","doi-asserted-by":"crossref","first-page":"5036","DOI":"10.1093\/nar\/gkh834","article-title":"Solving the riddle of codon usage preferences: a test for translational selection","volume":"32","author":"dos Reis","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"2023012512341624000_B2","doi-asserted-by":"crossref","first-page":"346","DOI":"10.1016\/j.tibtech.2004.04.006","article-title":"Codon bias and heterologous protein expression","volume":"22","author":"Gustafsson","year":"2004","journal-title":"Trends Biotechnol."},{"key":"2023012512341624000_B3","doi-asserted-by":"crossref","first-page":"279","DOI":"10.1016\/0022-5193(80)90008-9","article-title":"Mathematical modelling of translation of mRNA in eucaryotes; steady state, time-dependent processes and application to reticulocytes","volume":"86","author":"Heinrich","year":"1980","journal-title":"J. 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