{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,16]],"date-time":"2026-09-16T05:02:43Z","timestamp":1789534963688,"version":"build-2803163510"},"reference-count":23,"publisher":"Wiley","issue":"8","license":[{"start":{"date-parts":[[2026,7,6]],"date-time":"2026-07-06T00:00:00Z","timestamp":1783296000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"},{"start":{"date-parts":[[2026,7,6]],"date-time":"2026-07-06T00:00:00Z","timestamp":1783296000000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/doi.wiley.com\/10.1002\/tdm_license_1.1"}],"funder":[{"DOI":"10.13039\/501100017636","name":"Cancer Center Amsterdam","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100017636","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["Cytometry Pt A"],"published-print":{"date-parts":[[2026,8]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:p>Studies evaluating cellular phenotypes by cytometry techniques are increasingly facing analytical challenges due to the multitudes of samples and parameters that are evaluated concurrently. Spurious technical effects resulting from a lack of standardization can affect marker distributions and further complicate multi\u2010sample analyses. User\u2010friendly tools for exploratory data analysis to identify such technical effects in large datasets are lacking. To fill this gap, we present a novel R package, CytoScan, that evaluates inter\u2010measurement variation in cytometry datasets and allows for detecting anomalous measurements after data acquisition. CytoScan can detect two types of anomalies: files with limited similarity to others within a dataset (outliers) and files with limited similarity to previously acquired high\u2010quality reference data (novelties). Using simulations of skewed marker distributions and real\u2010life technical effects, we demonstrate that CytoScan can accurately detect such anomalies. CytoScan can be applied to large cytometry datasets on consumer\u2010grade hardware with informative visualizations, providing accessible quality control for more reliable analyses.<\/jats:p>","DOI":"10.1002\/cyto.a.70052","type":"journal-article","created":{"date-parts":[[2026,7,7]],"date-time":"2026-07-07T06:59:04Z","timestamp":1783407544000},"page":"581-592","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["CytoScan: Automated Detection of Technical Anomalies for Cytometry Quality Control"],"prefix":"10.1002","volume":"109","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9170-4131","authenticated-orcid":false,"given":"Tim R.","family":"Mocking","sequence":"first","affiliation":[{"name":"Department of Hematology Amsterdam UMC, Vrije Universiteit Amsterdam  Amsterdam the Netherlands"},{"name":"Imaging and Biomarkers Cancer Center Amsterdam  Amsterdam the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0007-8279-958X","authenticated-orcid":false,"given":"Felix","family":"Zwolle","sequence":"additional","affiliation":[{"name":"Department of Hematology Amsterdam UMC, Vrije Universiteit Amsterdam  Amsterdam the Netherlands"},{"name":"Imaging and Biomarkers Cancer Center Amsterdam  Amsterdam the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yejin","family":"Park","sequence":"additional","affiliation":[{"name":"Department of Hematology Amsterdam UMC, Vrije Universiteit Amsterdam  Amsterdam the Netherlands"},{"name":"Imaging and Biomarkers Cancer Center Amsterdam  Amsterdam the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ang\u00e8le","family":"Kelder","sequence":"additional","affiliation":[{"name":"Department of Hematology Amsterdam UMC, Vrije Universiteit Amsterdam  Amsterdam the Netherlands"},{"name":"Imaging and Biomarkers Cancer Center Amsterdam  Amsterdam the Netherlands"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0415-1506","authenticated-orcid":false,"given":"Yvan","family":"Saeys","sequence":"additional","affiliation":[{"name":"Data Mining and Modeling for Biomedicine VIB Center for Inflammation Research  Ghent Belgium"},{"name":"Department of Applied Mathematics, Computer Science and Statistics Ghent University  Ghent Belgium"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9150-8026","authenticated-orcid":false,"given":"Jacqueline","family":"Cloos","sequence":"additional","affiliation":[{"name":"Department of Hematology Amsterdam UMC, Vrije Universiteit Amsterdam  Amsterdam the Netherlands"},{"name":"Imaging and Biomarkers Cancer Center Amsterdam  Amsterdam the 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