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- Title
Detection of ALK fusion transcripts in FFPE lung cancer samples by NanoString technology.
- Authors
Evangelista, Adriane F.; Zanon, Maicon F.; Carloni, Adriana Cruvinel; de Paula, Flávia E.; Morini, Mariana Andozia; Ferreira-Neto, Maressa; Soares, Iberê Cauduro; Miziara, Jose Elias; de Marchi, Pedro; Scapulatempo-Neto, Cristovam; Reis, Rui M.
- Abstract
<bold>Background: </bold>ALK-rearranged lung cancers exhibit specific pathologic and clinical features and are responsive to anti-ALK therapies. Therefore, the detection of ALK-rearrangement is fundamental for personalized lung cancer therapy. Recently, new molecular techniques, such as NanoString nCounter, have been developed to detect ALK fusions with more accuracy and sensitivity.<bold>Methods: </bold>In the present study, we intended to validate a NanoString nCounter ALK-fusion panel in routine biopsies of FFPE lung cancer patients. A total of 43 samples were analyzed, 13 ALK-positive and 30 ALK-negative, as previously detected by FISH and/or immunohistochemistry.<bold>Results: </bold>The NanoString panel detected the presence of the EML4-ALK, KIF5B-ALK and TFG-ALK fusion variants. We observed that all the 13 ALK-positive cases exhibited genetic aberrations by the NanoString methodology. Namely, six cases (46.15%) presented EML-ALK variant 1, two (15.38%) presented EML-ALK variant 2, two (15.38%) presented EML-ALK variant 3a, and three (23.07%) exhibited no variant but presented unbalanced expression between 5'/3' exons, similar to other positive samples. Importantly, for all these analyses, the initial input of RNA was 100 ng, and some cases displayed poor RNA quality measurements.<bold>Conclusions: </bold>In this study, we reported the great utility of NanoString technology in the assessment of ALK fusions in routine lung biopsies of FFPE specimens.
- Subjects
LUNG cancer; CANCER treatment; IMMUNOHISTOCHEMISTRY; CANCER chemotherapy; MOLECULAR structure of RNA; NANOTECHNOLOGY; RNA analysis; ADENOCARCINOMA; LUNG tumors; PROTEINS; RNA; FLUORESCENCE in situ hybridization; RETROSPECTIVE studies
- Publication
BMC Pulmonary Medicine, 2017, Vol 17, p1
- ISSN
1471-2466
- Publication type
journal article
- DOI
10.1186/s12890-017-0428-0