Salvaging the supernatant: next generation cytopathology for solid tumor mutation profiling

Modern Pathology : an Official Journal of the United States and Canadian Academy of Pathology, Inc
Sinchita Roy-ChowdhuriRajyalakshmi Luthra

Abstract

With the expanding role of targeted therapy in patients with solid tumors, pathologists face the daunting task of having to maximize limited volume tissue obtained by fine needle aspiration for a variety of molecular tests. While most molecular studies on fine needle aspiration samples have been reported using cellular material, recent studies have shown that a substantial amount of DNA can be retrieved from the supernatant fluid of aspirate needle rinses after cell pelleting for cytospin or cell block preparations. In routine clinical workflow, the supernatant is discarded; however this fluid may provide a complementary source of DNA for tumor mutational profiling. In this study, we evaluated the post-centrifuged supernatant from 25 malignant and 10 benign fine needle aspiration needle rinses. The mean and median DNA yields from the supernatants were 445 ng and 176.4 ng (range, 15.1-2958 ng), respectively. Next generation sequencing using the Ion AmpliSeq Cancer Hotspot Panel v2 detected somatic mutations in all 25 malignant samples. No mutations were detected in any of the benign samples tested. When available, mutations detected in the supernatant fluid were compared to the next generation sequencing analysis performed on a ...Continue Reading

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Citations

Aug 30, 2018·Cancer Cytopathology·Douglas P Clark
Oct 15, 2018·Cancer Cytopathology·Sinchita Roy-Chowdhuri
Mar 20, 2019·Annals of Oncology : Official Journal of the European Society for Medical Oncology·B HanniganS Roy-Chowdhuri
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Oct 31, 2021·Cytopathology : Official Journal of the British Society for Clinical Cytology·Anthony Maddox, Louise M Smart

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Methods Mentioned

BETA
biopsy
PCR

Software Mentioned

IT Variant Caller Plugin
QuantaSoft
Torrent Suite
CytoLyt
Integrative Genomics Viewer ( IGV )

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