%0 Journal Article %1 Graw:2015:Sci-Rep:26202458 %A Graw, S %A Meier, R %A Minn, K %A Bloomer, C %A Godwin, A K %A Fridley, B %A Vlad, A %A Beyerlein, P %A Chien, J %D 2015 %J Sci Rep %K SHOULDREAD benchmark cancer-research ffpe fulltext gc-content pipeline rna-seq %P 12335-12335 %R 10.1038/srep12335 %T Robust gene expression and mutation analyses of RNA-sequencing of formalin-fixed diagnostic tumor samples %U https://www.ncbi.nlm.nih.gov/pubmed/26202458 %V 5 %X 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.

@article{Graw:2015:Sci-Rep:26202458, 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. }, added-at = {2018-08-12T10:13:19.000+0200}, author = {Graw, S and Meier, R and Minn, K and Bloomer, C and Godwin, A K and Fridley, B and Vlad, A and Beyerlein, P and Chien, J}, biburl = {https://www.bibsonomy.org/bibtex/25eaaa4a57d55418453b83fe245593eb5/marcsaric}, description = {Robust gene expression and mutation analyses of RNA-sequencing of formalin-fixed diagnostic tumor samples. - PubMed - NCBI}, doi = {10.1038/srep12335}, interhash = {88d77a2caabeb6820b0babd187a167b7}, intrahash = {5eaaa4a57d55418453b83fe245593eb5}, journal = {Sci Rep}, keywords = {SHOULDREAD benchmark cancer-research ffpe fulltext gc-content pipeline rna-seq}, month = jul, pages = {12335-12335}, pmid = {26202458}, timestamp = {2018-08-12T10:13:19.000+0200}, title = {Robust gene expression and mutation analyses of RNA-sequencing of formalin-fixed diagnostic tumor samples}, url = {https://www.ncbi.nlm.nih.gov/pubmed/26202458}, volume = 5, year = 2015 }