{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,5]],"date-time":"2026-10-05T19:41:08Z","timestamp":1791229268974,"version":"4.1.0"},"reference-count":37,"publisher":"Wiley","issue":"12","license":[{"start":{"date-parts":[[2021,7,15]],"date-time":"2021-07-15T00:00:00Z","timestamp":1626307200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"}],"content-domain":{"domain":["acsjournals.onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["Cancer Cytopathology"],"published-print":{"date-parts":[[2021,12]]},"abstract":"<jats:sec><jats:title>Background<\/jats:title><jats:p>Cytology specimens are often used for biomarker testing in the setting of neoplasia. On occasion, formalin\u2010fixed paraffin\u2010embedded (FFPE) cell blocks unfortunately may not yield sufficient material for testing. Recent studies have suggested that residual supernatant fluid from cell block preparation is a valuable source of DNA: both cellular and cell\u2010free DNA (cfDNA). In the present study, the use of cfDNA from supernatant is compared against DNA from FFPE materials.<\/jats:p><\/jats:sec><jats:sec><jats:title>Methods<\/jats:title><jats:p>cfDNA was extracted prospectively from\u00a0residual supernatants of 30 cytology\u00a0samples (29 neoplastic cases and 1 benign ascitic fluid from a patient with a history of melanoma).\u00a0Samples\u00a0were\u00a0tested using clinically validated next\u2010generation\u2013sequencing platforms and the results were\u00a0compared with data from paired FFPE\u00a0cell blocks in a real\u2010time prospective clinical setting. Thirteen samples were tested on an amplicon\u2010based assay (Solid Tumor Hotspot), and 17 samples were tested using a comprehensive capture\u2010based assay (UW\u2010Oncoplex).<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>Neoplastic content was estimated by mutational variant allele fraction, with a mean content of 24.0% and 25.8% in supernatant and FFPE, respectively. The variant concordance between paired samples was 90%, and identical results were detected in both supernatant and FFPE samples in 74% of cases.<\/jats:p><\/jats:sec><jats:sec><jats:title>Conclusions<\/jats:title><jats:p>This study confirmed that cfDNA from supernatant is a viable alternative\u00a0to FFPE cell blocks\u00a0for molecular biomarker testing using both amplicon\u2010based and capture\u2010based assays with potential for decreasing additional tissue sampling and faster turnaround time.<\/jats:p><\/jats:sec>","DOI":"10.1002\/cncy.22491","type":"journal-article","created":{"date-parts":[[2021,7,15]],"date-time":"2021-07-15T16:49:29Z","timestamp":1626367769000},"page":"956-965","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":14,"title":["Validating cell\u2010free DNA from supernatant for molecular diagnostics on cytology specimens"],"prefix":"10.1002","volume":"129","author":[{"given":"Marie 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