Genotyping data of routinely processed matched primary/metastatic tumor samples

Kotoula, Vassiliki and Chatzopoulos, Kyriakos and Papadopoulou, Kyriaki and Giannoulatou, Eleni and Koliou, Georgia-Angeliki and Karavasilis, Vasilios and Pazarli, Elissavet and Pervana, Stavroula and Kafiri, Georgia and Tsoulfas, Georgios and Chrisafi, Sofia and Sgouramali, Helen and Papakostas, Pavlos and Pectasides, Dimitrios and Hytiroglou, Prodromos and Pentheroudakis, George and Fountzilas, George (2021) Genotyping data of routinely processed matched primary/metastatic tumor samples. Data in Brief, 34. p. 106646. ISSN 23523409

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Genotypic and phenotypic comparisons of tumors in multiple tissue samples from the same patient are important for understanding disease evolution and treatment possibilities. Panel NGS genotyping is currently widely used in this context, whereby NGS variant filtering and final evaluation constitute the basis for meaningful comparisons. Here, we present the genotype data used for genotype / phenotype comparisons between matched primary / metastatic colorectal tumors in the work by Chatzopoulos et al (doi: 10.1016/j.humpath.2020.10.009), as well as the process followed for obtaining these data. We describe key issues while processing routinely formalin-fixed paraffin-embedded (FFPE) tumors for genotyping, NGS application (Ion Torrent), a stringent variant filtering algorithm for genotype analyses in FFPE tissues and particularly in matched tumor samples, and provide the respective datasets. Apart from research, tumor NGS genotyping is currently applied for clinical diagnostic purposes in Oncology. The datasets and method description provided herein (a) are important for comprehending the peculiarities of FFPE tumor genotyping, which is still mostly based on principles of germline DNA genotyping; (b) can be used in pooled analyses, e.g., of primary / metastatic tumors for the investigation of tumor evolution.

Item Type: Article
Subjects: R Medicine > R Medicine (General)
Depositing User: Repository Administrator
Date Deposited: 26 Feb 2021 02:52
Last Modified: 15 Oct 2021 00:20

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