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Ancillary cytogenetic techniques to detect genome-wide copy number variations (CNVs) might provide a valuable tool to allow accurate classification as benign (nevus) or malignant (melanoma). However, the CNV cut-off value to distinguish intermediate lesions from melanoma is not well defined. We performed a systematic review and individual patient data meta-analysis to evaluate the use of CNVs to classify intermediate melanocytic lesions. A total of 31 studies and 431 individual lesions were included. The CNV number in intermediate lesions (median 1, interquartile range [IQR] 0\u20132) was significantly higher (<jats:italic>p<\/jats:italic>&lt;0.001) compared to that in benign lesions (median 0, IQR 0\u20131) and lower (<jats:italic>p<\/jats:italic>&lt;0.001) compared to that in malignant lesions (median 6, IQR 4\u201311). The CNV number displayed excellent ability to differentiate between intermediate and malignant lesions (0.90, 95% CI 0.86\u20130.94, <jats:italic>p<\/jats:italic>&lt;0.001). Two CNV cut-off points demonstrated a sensitivity and specificity higher than 80%. A cut-off of \u22653 CNVs corresponded to 85% sensitivity and 84% specificity, and a cut-off of \u22654 CNVs corresponded to 81% sensitivity and 91% specificity, respectively. This individual patient data meta-analysis provides a comprehensive overview of CNVs in cutaneous intermediate melanocytic lesions, based on the largest pooled cohort of ambiguous melanocytic neoplasms to date. Our meta-analysis suggests that a cut-off of \u22653 CNVs might represent the optimal trade-off between sensitivity and specificity in clinical practice to differentiate intermediate lesions from melanoma.<\/jats:p>","DOI":"10.1007\/s00428-021-03095-5","type":"journal-article","created":{"date-parts":[[2021,4,13]],"date-time":"2021-04-13T22:03:12Z","timestamp":1618351392000},"page":"773-783","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":17,"title":["Genome-wide copy number variations as molecular diagnostic tool for cutaneous intermediate melanocytic lesions: a systematic review and individual patient data meta-analysis"],"prefix":"10.1007","volume":"479","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6656-8967","authenticated-orcid":false,"given":"Chiel F.","family":"Ebbelaar","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anne M. 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