MicroRNA profiling of clear cell renal cell carcinoma by whole‐genome small RNA deep sequencing of paired frozen and formalin‐fixed, paraffin‐embedded tissue specimens

• DOI: 10.1002/path.2736
• Publication Date: 2010-05-24T21:25:05Z
• Authors: Lihong Weng; Xiwei Wu; Hanlin Gao; Bing Mu; Xuejun Li; Jin‐Hui Wang; Chao Guo; Jennifer M Jin; Zhuo Chen; Maricela Covarrubias; Yate‐Ching Yuan; Lawrence M Weiss; Huiqing Wu
• Keywords: Cryopreservation; Paraffin Embedding; Tissue Fixation; Reverse Transcriptase Polymerase Chain Reaction; Gene Expression Profiling; Kidney Neoplasms; 3. Good health; Gene Expression Regulation, Neoplastic; MicroRNAs; 03 medical and health sciences; 0302 clinical medicine; Formaldehyde; Cluster Analysis; Humans; RNA, Neoplasm; Carcinoma, Renal Cell; Oligonucleotide Array Sequence Analysis

Renal cell carcinoma (RCC) is one of the leading causes cancer mortality. Characterization microRNA (miRNA) expression RCC will help disclose new pathogenic pathways in tumourigenesis and progression may lead to development molecular biomarkers target-specific therapies for diagnosis, prognostication treatment. With limitations test specificity ability detect novel miRNA other small non-coding RNAs (smRNAs), microarray RT-PCR techniques are being replaced by evolving deep-sequencing technologies, at least discovery phase. Until now, profiling human benign tumour specimen sets, using smRNA (smRNA-seq), has not been reported. Specifically, due concern over possible poor RNA quality/integrity, formalin-fixed paraffin-embedded (FFPE) samples have used such studies. Here, we performed whole-genome smRNA-seq analysis a set successfully profiled expression. Studies on paired frozen FFPE specimens showed very similar results. Moreover, comparison study microarray, methodologies also high correlation among three technologies. To our knowledge, this first demonstrate that can be reliably analysis, making future large-scale clinical cohort/trial-based studies possible.