{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T20:34:29Z","timestamp":1772138069880,"version":"3.50.1"},"reference-count":12,"publisher":"Oxford University Press (OUP)","issue":"10","license":[{"start":{"date-parts":[[2024,10,9]],"date-time":"2024-10-09T00:00:00Z","timestamp":1728432000000},"content-version":"vor","delay-in-days":8,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001659","name":"Deutsche Forschungsgemeinschaft","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001659","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Germany\u2019s Excellence Strategy","award":["CIBSS-EXC-2189-2100249960-390939984"],"award-info":[{"award-number":["CIBSS-EXC-2189-2100249960-390939984"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,10,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>The retarded transient function (RTF) approach serves as a complementary method to ordinary differential equations (ODEs) for modelling dynamics typically observed in cellular signalling processes. We introduce an R package that implements the RTF approach, originally implemented within the MATLAB-based Data2Dynamics modelling framework. This package facilitates the modelling of time and dose dependencies, and it includes the possibility of model reduction to minimize overfitting. It can be applied to experimental data or trajectories of ODE models to characterize their dynamics. Additionally, it can generate a low-dimensional representation based on the fitted RTF parameters of a set of time-resolved data, aiding in the identification of key targets of experimental perturbations.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>The R package RTF is available at https:\/\/github.com\/kreutz-lab\/RTF.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btae597","type":"journal-article","created":{"date-parts":[[2024,10,7]],"date-time":"2024-10-07T15:22:10Z","timestamp":1728314530000},"source":"Crossref","is-referenced-by-count":0,"title":["RTF: an R package for modelling time course data"],"prefix":"10.1093","volume":"40","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5488-0985","authenticated-orcid":false,"given":"Eva","family":"Brombacher","sequence":"first","affiliation":[{"name":"Institute of Medical Biometry and Statistics, Faculty of Medicine and Medical Center-University of Freiburg , 79104 Freiburg,","place":["Germany"]},{"name":"Centre for Integrative Biological Signalling Studies (CIBSS), University of Freiburg , 79104 Freiburg,","place":["Germany"]},{"name":"Spemann Graduate School of Biology and Medicine (SGBM), University of Freiburg , 79104 Freiburg,","place":["Germany"]},{"name":"Faculty of Biology, University of Freiburg , 79104 Freiburg,","place":["Germany"]}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8796-5766","authenticated-orcid":false,"given":"Clemens","family":"Kreutz","sequence":"additional","affiliation":[{"name":"Institute of Medical Biometry and Statistics, Faculty of Medicine and Medical Center-University of Freiburg , 79104 Freiburg,","place":["Germany"]},{"name":"Centre for Integrative Biological Signalling Studies (CIBSS), University of Freiburg , 79104 Freiburg,","place":["Germany"]}]}],"member":"286","published-online":{"date-parts":[[2024,10,9]]},"reference":[{"key":"2025030500331466400_btae597-B1","doi-asserted-by":"crossref","first-page":"2098","DOI":"10.1016\/j.celrep.2014.11.024","article-title":"A pathway switch directs BAFF signaling to distinct NF\u03baB transcription factors in maturing and proliferating B cells","volume":"9","author":"Almaden","year":"2014","journal-title":"Cell Rep"},{"key":"2025030500331466400_btae597-B2","doi-asserted-by":"crossref","first-page":"btae312","DOI":"10.1093\/bioinformatics\/btae312","article-title":"Bayesian modelling of time series data (baymodts)\u2014a fair workflow to process sparse and highly variable data","volume":"40","author":"H\u00f6pfl","year":"2024","journal-title":"Bioinformatics"},{"key":"2025030500331466400_btae597-B3","doi-asserted-by":"crossref","first-page":"1","DOI":"10.3389\/fphy.2020.00070","article-title":"A new approximation approach for transient differential 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