Work

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

Year: 2015

Type: article

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.

Source: Scientific Reports

DOI: 10.1038/srep12335

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

Institutions: Technical University of Applied Sciences Wildau, University of Kansas Medical Center, University of Pittsburgh

Language: English

Topic: Cancer Genomics and Diagnostics

Subfield: Cancer Research

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

SDG: Good health and well-being

Open Access status: gold

Estimated APC paid: $2,690

Funders: U.S. Department of Defense, Georgia Clinical and Translational Science Alliance, National Institutes of Health, National Cancer Institute, National Center for Advancing Translational Sciences, Eunice Kennedy Shriver National Institute of Child Health and Human Development

Awards: G4061461591, G4119534169, G4153205649, MUC1 Roles in ovarian cancer pathogenesis and immune therapy, Heartland Institute for Clinical and Translational Research, Kansas Intellectual and Developmental Disabilities Research Center (KIDDRC), INTEGRATIVE FUNCTIONAL GENOMICS AND PROTEOMICS TO UNCOVER MECHANISMS OF RESISTANCE TO CHEMOTHERAPY IN OVARIAN CANCER, DISEASE HETEROGENEITY AND IMMUNE BIOMARKERS IN PRECLINICAL MOUSE MODELS OF OVARIAN CARCINOGENESIS, Mayo Clinic Ovarian Cancer SPORE

OpenAlex ID: W1032479178

FWCI: 2.754

Cites: 33

Cited by: 79

Related to: 10