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https://doi.org/10.1371/journal.pone.0128916
Title: | An efficient method for identifying gene fusions by targeted RNA sequencing from fresh frozen and FFPE samples | Authors: | Scolnick J.A. Dimon M. Wang I.-C. Huelga S.C. Amorese D.A. |
Keywords: | RNA RNA Article controlled study exon formalin fixed paraffin embedded frozen section gene function gene fusion gene identification gene targeting human human cell human tissue investigative procedures molecular dynamics RNA sequence sequence analysis tissue section breast tumor fluorescence in situ hybridization gene fusion genetics high throughput sequencing Paget nipple disease pathology Breast Neoplasms Carcinoma, Ductal, Breast Gene Fusion High-Throughput Nucleotide Sequencing Humans In Situ Hybridization, Fluorescence Oncogene Fusion RNA |
Issue Date: | 2015 | Citation: | Scolnick J.A., Dimon M., Wang I.-C., Huelga S.C., Amorese D.A. (2015). An efficient method for identifying gene fusions by targeted RNA sequencing from fresh frozen and FFPE samples. PLoS ONE 10 (7) : e0128916. ScholarBank@NUS Repository. https://doi.org/10.1371/journal.pone.0128916 | Rights: | Attribution 4.0 International | Abstract: | Fusion genes are known to be key drivers of tumor growth in several types of cancer. Traditionally, detecting fusion genes has been a difficult task based on fluorescent in situ hybridization to detect chromosomal abnormalities. More recently, RNA sequencing has enabled an increased pace of fusion gene identification. However, RNA-Seq is inefficient for the identification of fusion genes due to the high number of sequencing reads needed to detect the small number of fusion transcripts present in cells of interest. Here we describe a method, Single Primer Enrichment Technology (SPET), for targeted RNA sequencing that is customizable to any target genes, is simple to use, and efficiently detects gene fusions. Using SPET to target 5701 exons of 401 known cancer fusion genes for sequencing, we were able to identify known and previously unreported gene fusions from both fresh-frozen and formalin-fixed paraffin-embedded (FFPE) tissue RNA in both normal tissue and cancer cells. © 2015 Scolnick et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. | Source Title: | PLoS ONE | URI: | https://scholarbank.nus.edu.sg/handle/10635/161501 | ISSN: | 19326203 | DOI: | 10.1371/journal.pone.0128916 | Rights: | Attribution 4.0 International |
Appears in Collections: | Staff Publications Elements |
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