Robust gene expression and mutation analyses of RNA-sequencing of formalin-fixed diagnostic tumor samples

Stefan Graw, Richard Meier, Kay Minn, Clark Bloomer, Andrew K. Godwin, Brooke Fridley, Anda Vlad, Peter Beyerlein, Jeremy Chien

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27 Scopus citations

Abstract

Current genomic studies are limited by the availability of fresh tissue samples. Here, we show that Illumina RNA sequencing of formalin-fixed diagnostic tumor samples produces gene expression that is strongly correlated with matched frozen tumor samples (r>0.89). In addition, sequence variations identified from FFPE RNA show 99.67% concordance with that from exome sequencing of matched frozen tumor samples. Because FFPE is a routine diagnostic sample preparation, the feasibility results reported here will facilitate the setup of large-scale research and clinical studies in medical genomics that are currently limited by the availability of fresh frozen samples.

Original languageEnglish (US)
Article number12335
JournalScientific reports
Volume5
DOIs
StatePublished - Jul 23 2015
Externally publishedYes

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Cite this

Graw, S., Meier, R., Minn, K., Bloomer, C., Godwin, A. K., Fridley, B., Vlad, A., Beyerlein, P., & Chien, J. (2015). Robust gene expression and mutation analyses of RNA-sequencing of formalin-fixed diagnostic tumor samples. Scientific reports, 5, [12335]. https://doi.org/10.1038/srep12335