{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,21]],"date-time":"2026-05-21T16:09:41Z","timestamp":1779379781845,"version":"3.53.1"},"reference-count":30,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2019,6,19]],"date-time":"2019-06-19T00:00:00Z","timestamp":1560902400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"Inria Rennes and CREST-Ensai-Universit\u00e9 Bretagne Loire"},{"DOI":"10.13039\/501100001665","name":"French National Research Agency","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]},{"name":"France-BioImaging infrastructure","award":["ANR-10-INBS-04"],"award-info":[{"award-number":["ANR-10-INBS-04"]}]},{"name":"France-BioImaging infrastructure","award":["DALLISH\u2013ANR-16-CE23-0005"],"award-info":[{"award-number":["DALLISH\u2013ANR-16-CE23-0005"]}]},{"DOI":"10.13039\/501100020698","name":"LabEx CelTisPhyBio","doi-asserted-by":"crossref","award":["ANR-11-LABX-0038"],"award-info":[{"award-number":["ANR-11-LABX-0038"]}],"id":[{"id":"10.13039\/501100020698","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/100004412","name":"HFSP","doi-asserted-by":"publisher","award":["RGP0029\/2014"],"award-info":[{"award-number":["RGP0029\/2014"]}],"id":[{"id":"10.13039\/100004412","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,1,1]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Motivation<\/jats:title><jats:p>Recent advances in molecular biology and fluorescence microscopy imaging have made possible the inference of the dynamics of single molecules in living cells. Changes of dynamics can occur along a trajectory. Then, an issue is to estimate the temporal change-points that is the times at which a change of dynamics occurs. The number of points in the trajectory required to detect such changes will depend on both the magnitude and type of the motion changes. Here, the number of points per trajectory is of the order of 102, even if in practice dramatic motion changes can be detected with less points.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>We propose a non-parametric procedure based on test statistics computed on local windows along the trajectory to detect the change-points. This algorithm controls the number of false change-point detections in the case where the trajectory is fully Brownian. We also develop a strategy for aggregating the detections obtained with different window sizes so that the window size is no longer a parameter to optimize. A Monte Carlo study is proposed to demonstrate the performances of the method and also to compare the procedure to two competitive algorithms. At the end, we illustrate the efficacy of the method on real data in 2D and 3D, depicting the motion of mRNA complexes\u2014called mRNA-binding proteins\u2014in neuronal dendrites, Galectin-3 endocytosis and trafficking within the cell.<\/jats:p><\/jats:sec><jats:sec><jats:title>Availability and implementation<\/jats:title><jats:p>A user-friendly Matlab package containing examples and the code of the simulations used in the paper is available at http:\/\/serpico.rennes.inria.fr\/doku.php? id=software:cpanalysis:index.<\/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\/btz489","type":"journal-article","created":{"date-parts":[[2019,6,12]],"date-time":"2019-06-12T11:52:59Z","timestamp":1560340379000},"page":"317-329","source":"Crossref","is-referenced-by-count":12,"title":["A sequential algorithm to detect diffusion switching along intracellular particle trajectories"],"prefix":"10.1093","volume":"36","author":[{"given":"Vincent","family":"Briane","sequence":"first","affiliation":[{"name":"INRIA, Centre de Rennes Bretagne Atlantique, Serpico Project-Team , Rennes 35042, France"},{"name":"CREST (Ensai, Universit\u00e9 Bretagne Loire) , Bruz 35170, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Myriam","family":"Vimond","sequence":"additional","affiliation":[{"name":"CREST (Ensai, Universit\u00e9 Bretagne Loire) , Bruz 35170, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cesar Augusto","family":"Valades-Cruz","sequence":"additional","affiliation":[{"name":"Institut Curie, PLS Research University, Cellular and Chemical Biology, U1143 INSERM\/UMR 3666 CNRS , 26 Rue d\u2019Ulm, Paris Cedex 05 75248, France"},{"name":"Institut Curie - Centre de Recherche, PLS Research University, Space-Time Imaging of Endomembranes and Organelles Dynamics Team , 26 rue d'Ulm, Paris Cedex 05 75248, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Antoine","family":"Salomon","sequence":"additional","affiliation":[{"name":"INRIA, Centre de Rennes Bretagne Atlantique, Serpico Project-Team , Rennes 35042, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christian","family":"Wunder","sequence":"additional","affiliation":[{"name":"Institut Curie, PLS Research University, Cellular and Chemical Biology, U1143 INSERM\/UMR 3666 CNRS , 26 Rue d\u2019Ulm, Paris Cedex 05 75248, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Charles","family":"Kervrann","sequence":"additional","affiliation":[{"name":"INRIA, Centre de Rennes Bretagne Atlantique, Serpico Project-Team , Rennes 35042, France"},{"name":"Institut Curie - Centre de Recherche, PLS Research University, Space-Time Imaging of Endomembranes and Organelles Dynamics Team , 26 rue d'Ulm, Paris Cedex 05 75248, France"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2019,6,19]]},"reference":[{"key":"2023013109502058100_btz489-B1","doi-asserted-by":"crossref","first-page":"248103.","DOI":"10.1103\/PhysRevLett.101.248103","article-title":"Temporal analysis of active and passive transport in living cells","volume":"101","author":"Arcizet","year":"2008","journal-title":"Phys. Rev. Lett"},{"key":"2023013109502058100_btz489-B2","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1111\/j.2517-6161.1995.tb02031.x","article-title":"Controlling the false discovery rate: a practical and powerful approach to multiple testing","volume":"57","author":"Benjamini","year":"1995","journal-title":"J. R. Stat. Soc.: Ser. B (Methodol.)"},{"key":"2023013109502058100_btz489-B3","doi-asserted-by":"crossref","first-page":"022708.","DOI":"10.1103\/PhysRevE.89.022708","article-title":"Anomalous diffusion due to hindering by mobile obstacles undergoing Brownian motion or Ornstein-Ulhenbeck processes","volume":"89","author":"Berry","year":"2014","journal-title":"Phys. Rev. E"},{"key":"2023013109502058100_btz489-B4","doi-asserted-by":"crossref","first-page":"654","DOI":"10.1529\/biophysj.106.094524","article-title":"Transient directed motions of gabaa receptors in growth cones detected by a speed correlation index","volume":"92","author":"Bouzigues","year":"2007","journal-title":"Biophys. J"},{"key":"2023013109502058100_btz489-B5","doi-asserted-by":"crossref","DOI":"10.1007\/978-3-319-08488-6","volume-title":"Stochastic Processes in Cell Biology","author":"Bressloff","year":"2014"},{"key":"2023013109502058100_btz489-B6","doi-asserted-by":"crossref","first-page":"135.","DOI":"10.1103\/RevModPhys.85.135","article-title":"Stochastic models of intracellular transport","volume":"85","author":"Bressloff","year":"2013","journal-title":"Rev. Modern Phys"},{"key":"2023013109502058100_btz489-B7","doi-asserted-by":"crossref","first-page":"062121.","DOI":"10.1103\/PhysRevE.97.062121","article-title":"Statistical analysis of particle trajectories in living cells","volume":"97","author":"Briane","year":"2018","journal-title":"Phys. Rev. E"},{"key":"2023013109502058100_btz489-B8","volume-title":"Brief Bioinform","author":"Briane","year":"2019"},{"key":"2023013109502058100_btz489-B9","first-page":"974","author":"Cao","year":"2015"},{"key":"2023013109502058100_btz489-B10","doi-asserted-by":"crossref","first-page":"1257998.","DOI":"10.1126\/science.1257998","article-title":"Lattice light-sheet microscopy: imaging molecules to embryos at high spatiotemporal resolution","volume":"346","author":"Chen","year":"2014","journal-title":"Science"},{"key":"2023013109502058100_btz489-B11","doi-asserted-by":"crossref","first-page":"2736","DOI":"10.1109\/TPAMI.2013.97","article-title":"Multiple hypothesis tracking for cluttered biological image sequences","volume":"35","author":"Chenouard","year":"2013","journal-title":"IEEE Trans. Patt. Anal. Mach. Intell"},{"key":"2023013109502058100_btz489-B12","doi-asserted-by":"crossref","first-page":"281.","DOI":"10.1038\/nmeth.2808","article-title":"Objective comparison of particle tracking methods","volume":"11","author":"Chenouard","year":"2014","journal-title":"Nat. Methods"},{"key":"2023013109502058100_btz489-B13","doi-asserted-by":"crossref","first-page":"197.","DOI":"10.1186\/s12859-016-1064-z","article-title":"Automatic detection of diffusion modes within biological membranes using back-propagation neural network","volume":"17","author":"Dosset","year":"2016","journal-title":"BMC Bioinformatics"},{"key":"2023013109502058100_btz489-B14","doi-asserted-by":"crossref","first-page":"347","DOI":"10.1016\/j.jsb.2007.04.003","article-title":"A novel supervised trajectory segmentation algorithm identifies distinct types of human adenovirus motion in host cells","volume":"159","author":"Helmuth","year":"2007","journal-title":"J. Struct. Biol"},{"key":"2023013109502058100_btz489-B15","doi-asserted-by":"crossref","first-page":"17052","DOI":"10.1073\/pnas.1204589109","article-title":"Heterogeneity of ampa receptor trafficking and molecular interactions revealed by superresolution analysis of live cell imaging","volume":"109","author":"Hoze","year":"2012","journal-title":"Proc. Natl. Acad. Sci"},{"key":"2023013109502058100_btz489-B16","doi-asserted-by":"crossref","first-page":"6","DOI":"10.1109\/JSTSP.2015.2505402","article-title":"A guided tour of selected image processing and analysis methods for fluorescence and electron microscopy","volume":"10","author":"Kervrann","year":"2016","journal-title":"IEEE J. Select. Topics Signal Process"},{"key":"2023013109502058100_btz489-B17","doi-asserted-by":"crossref","first-page":"011921.","DOI":"10.1103\/PhysRevE.79.011921","article-title":"Quantitative analysis of virus and plasmid trafficking in cells","volume":"79","author":"Lagache","year":"2009","journal-title":"Phys. Rev. E"},{"key":"2023013109502058100_btz489-B18","doi-asserted-by":"crossref","first-page":"595","DOI":"10.1038\/ncb2970","article-title":"Galectin-3 drives glycosphingolipid-dependent biogenesis of Clathrin-independent carriers","volume":"16","author":"Lakshminarayan","year":"2014","journal-title":"Nat. Cell Biol"},{"key":"2023013109502058100_btz489-B19","doi-asserted-by":"crossref","first-page":"926","DOI":"10.1214\/15-AOAS819","article-title":"Tracking rapid intracellular movements: a Bayesian random set approach","volume":"9","author":"Maroulas","year":"2015","journal-title":"Ann. Appl. Stat"},{"key":"2023013109502058100_btz489-B20","doi-asserted-by":"crossref","first-page":"011915.","DOI":"10.1103\/PhysRevE.73.011915","article-title":"Detection of confinement and jumps in single-molecule membrane trajectories","volume":"73","author":"Meilhac","year":"2006","journal-title":"Phys. Rev. E"},{"key":"2023013109502058100_btz489-B21","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/S0370-1573(00)00070-3","article-title":"The random walk\u2019s guide to anomalous diffusion: a fractional dynamics approach","volume":"339","author":"Metzler","year":"2000","journal-title":"Phys. Rep"},{"key":"2023013109502058100_btz489-B22","doi-asserted-by":"crossref","first-page":"838","DOI":"10.1038\/nmeth.3483","article-title":"Inferring transient particle transport dynamics in live cells","volume":"12","author":"Monnier","year":"2015","journal-title":"Nat. Methods"},{"key":"2023013109502058100_btz489-B23","doi-asserted-by":"crossref","first-page":"793","DOI":"10.1083\/jcb.200503152","article-title":"A rac switch regulates random versus directionally persistent cell migration","volume":"170","author":"Pankov","year":"2005","journal-title":"J. Cell Biol"},{"key":"2023013109502058100_btz489-B24","doi-asserted-by":"crossref","first-page":"910.","DOI":"10.1016\/S0006-3495(91)82125-7","article-title":"Single particle tracking. analysis of diffusion and flow in two-dimensional systems","volume":"60","author":"Qian","year":"1991","journal-title":"Biophys. J"},{"key":"2023013109502058100_btz489-B25","doi-asserted-by":"crossref","first-page":"5395","DOI":"10.1109\/TIP.2017.2707803","article-title":"Piecewise-stationary motion modeling and iterative smoothing to track heterogeneous particle motions in dense environments","volume":"26","author":"Roudot","year":"2017","journal-title":"IEEE Trans. Image Process"},{"key":"2023013109502058100_btz489-B26","doi-asserted-by":"crossref","first-page":"989","DOI":"10.1016\/S0006-3495(95)79972-6","article-title":"Detection of temporary lateral confinement of membrane proteins using single-particle tracking analysis","volume":"69","author":"Simson","year":"1995","journal-title":"Biophys. J"},{"key":"2023013109502058100_btz489-B27","author":"Truong","year":"2018"},{"key":"2023013109502058100_btz489-B28","doi-asserted-by":"crossref","first-page":"e82799.","DOI":"10.1371\/journal.pone.0082799","article-title":"Bayesian decision tree for the classification of the mode of motion in single-molecule trajectories","volume":"8","author":"T\u00fcrkcan","year":"2013","journal-title":"PLoS One"},{"key":"2023013109502058100_btz489-B29","doi-asserted-by":"crossref","first-page":"1018","DOI":"10.1016\/j.bpj.2018.01.012","article-title":"Multistep track segmentation and motion classification for transient mobility analysis","volume":"114","author":"Vega","year":"2018","journal-title":"Biophys. J"},{"key":"2023013109502058100_btz489-B30","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1016\/j.bpj.2017.11.008","article-title":"Detection of velocity and diffusion coefficient change points in single-particle trajectories","volume":"115","author":"Yin","year":"2018","journal-title":"Biophys. J"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btz489\/28934312\/btz489.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/36\/1\/317\/48981370\/bioinformatics_36_1_317.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/36\/1\/317\/48981370\/bioinformatics_36_1_317.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,7,19]],"date-time":"2024-07-19T16:23:53Z","timestamp":1721406233000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/36\/1\/317\/5520435"}},"subtitle":[],"editor":[{"given":"Robert","family":"Murphy","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2019,6,19]]},"references-count":30,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2020,1,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btz489","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2020,1,1]]},"published":{"date-parts":[[2019,6,19]]}}}