{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,24]],"date-time":"2026-01-24T05:45:37Z","timestamp":1769233537718,"version":"3.49.0"},"reference-count":11,"publisher":"Oxford University Press (OUP)","issue":"12","license":[{"start":{"date-parts":[[2022,5,17]],"date-time":"2022-05-17T00:00:00Z","timestamp":1652745600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000268","name":"Biotechnology and Biological Sciences Research Council","doi-asserted-by":"crossref","award":["BB\/R009503\/1"],"award-info":[{"award-number":["BB\/R009503\/1"]}],"id":[{"id":"10.13039\/501100000268","id-type":"DOI","asserted-by":"crossref"}]},{"name":"Wellcome Senior Investigator Award","award":["106151\/Z\/14\/Z"],"award-info":[{"award-number":["106151\/Z\/14\/Z"]}]},{"name":"The LLSM Facility was established at Warwick with a Wellcome Trust Multi-user Equipment","award":["208384\/Z\/17\/Z"],"award-info":[{"award-number":["208384\/Z\/17\/Z"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,6,13]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Motivation<\/jats:title><jats:p>Lattice light-sheet microscopy (LLSM) is revolutionizing cell biology since it enables fast, high-resolution extended imaging in three dimensions combined with a drastic reduction in photo-toxicity and bleaching. However, analysis of such datasets still remains a major challenge.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>Automated tracking of kinetochores, the protein complex facilitating and controlling microtubule attachment of the chromosomes within the mitotic spindle, provides quantitative assessment of chromosome dynamics in mitosis. Here, we extend existing open-source kinetochore tracking software (KiT) to track (and pair) kinetochores throughout prometaphase to anaphase in LLSM data. One of the key improvements is a regularization term in the objective function to enforce biological information about the number of kinetochores in a human mitotic cell, as well as improved diagnostic tools. This software provides quantitative insights into how kinetochores robustly ensure congression and segregation of chromosomes during mitosis.<\/jats:p><\/jats:sec><jats:sec><jats:title>Availability and implementation<\/jats:title><jats:p>KiT is free, open-source software implemented in MATLAB and can be downloaded as a package from https:\/\/github.com\/cmcb-warwick\/KiT. The source repository is available at https:\/\/bitbucket.org\/jarmond\/kit (tag v2.4.0) and under continuing development.<\/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\/btac330","type":"journal-article","created":{"date-parts":[[2022,5,17]],"date-time":"2022-05-17T12:06:13Z","timestamp":1652789173000},"page":"3315-3317","source":"Crossref","is-referenced-by-count":6,"title":["Kinetochore tracking in 3D from lattice light-sheet imaging data with KiT"],"prefix":"10.1093","volume":"38","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2748-9921","authenticated-orcid":false,"given":"Jonathan U","family":"Harrison","sequence":"first","affiliation":[{"name":"Zeeman Institute (SBIDER), Mathematics Institute, University of Warwick , Coventry, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6685-7010","authenticated-orcid":false,"given":"Onur","family":"Sen","sequence":"additional","affiliation":[{"name":"Centre for Mechanochemical Cell Biology and Division of Biomedical Sciences, Warwick Medical School, University of Warwick , Coventry, UK"}]},{"given":"Andrew D","family":"McAinsh","sequence":"additional","affiliation":[{"name":"Centre for Mechanochemical Cell Biology and Division of Biomedical Sciences, Warwick Medical School, University of Warwick , Coventry, UK"}]},{"given":"Nigel J","family":"Burroughs","sequence":"additional","affiliation":[{"name":"Zeeman Institute (SBIDER), Mathematics Institute, University of Warwick , Coventry, UK"}]}],"member":"286","published-online":{"date-parts":[[2022,5,17]]},"reference":[{"key":"2023041408200573500_","doi-asserted-by":"crossref","first-page":"1917","DOI":"10.1093\/bioinformatics\/btw087","article-title":"KiT: a MATLAB package for kinetochore tracking","volume":"32","author":"Armond","year":"2016","journal-title":"Bioinformatics"},{"key":"2023041408200573500_","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":"2023041408200573500_","doi-asserted-by":"crossref","first-page":"695","DOI":"10.1038\/nmeth.1237","article-title":"Robust single-particle tracking in live-cell time-lapse sequences","volume":"5","author":"Jaqaman","year":"2008","journal-title":"Nat. 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Cell Sci"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btac330\/43845901\/btac330.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/38\/12\/3315\/49885436\/btac330.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/38\/12\/3315\/49885436\/btac330.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,11,21]],"date-time":"2023-11-21T18:43:11Z","timestamp":1700592191000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/38\/12\/3315\/6586793"}},"subtitle":[],"editor":[{"given":"Jonathan","family":"Wren","sequence":"additional","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2022,5,17]]},"references-count":11,"journal-issue":{"issue":"12","published-print":{"date-parts":[[2022,6,13]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btac330","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2022,6,15]]},"published":{"date-parts":[[2022,5,17]]}}}