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Assessment of intra-tumoural colorectal cancer prognostic biomarkers using RNA in situ hybridisation

Genome-wide expression studies using microarrays and RNAseq have increased our understanding of colorectal cancer development. Translating potential gene biomarkers from these studies for clinical utility has typically relied on PCR-based technology and immunohistochemistry. Results from these techn...

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Autores principales: Morley-Bunker, Arthur, Pearson, John, Currie, Margaret J., Morrin, Helen, Whitehead, Martin R., Eglinton, Tim, Walker, Logan C.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Impact Journals LLC 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6402718/
https://www.ncbi.nlm.nih.gov/pubmed/30858927
http://dx.doi.org/10.18632/oncotarget.26675
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author Morley-Bunker, Arthur
Pearson, John
Currie, Margaret J.
Morrin, Helen
Whitehead, Martin R.
Eglinton, Tim
Walker, Logan C.
author_facet Morley-Bunker, Arthur
Pearson, John
Currie, Margaret J.
Morrin, Helen
Whitehead, Martin R.
Eglinton, Tim
Walker, Logan C.
author_sort Morley-Bunker, Arthur
collection PubMed
description Genome-wide expression studies using microarrays and RNAseq have increased our understanding of colorectal cancer development. Translating potential gene biomarkers from these studies for clinical utility has typically relied on PCR-based technology and immunohistochemistry. Results from these techniques are limited by tumour sample heterogeneity and the lack of correlation between mRNA transcript abundance and corresponding protein levels. The aim of this research was to investigate the clinical utility of the RNA in situ hybridisation technique, RNAscope(®), for measuring intra-tumoural gene expression of potential prognostic markers in a colorectal cancer cohort. Two candidate gene markers (GFI1 and TNFRSF11A) assessed in this study were identified from a previous study led by the The Cancer Genome Atlas (TCGA) Network, and analysis was performed on 112 consecutively collected, archival FFPE colorectal cancer tumour samples. Consistent with the TCGA Network study, we found reduced GFI1 expression was associated with high-grade and left-sided tumours, and reduced TNFRSF11A expression was associated with metastasis and high nodal involvement. RNAscope(®) combined with image analysis also enabled quantification of GFI1 and TNFRSF11A mRNA expression levels at the single cell level, allowing cell-type determination. These data showed that reduced mRNA transcript abundance measured in patients with poorer prognosis occurred in carcinoma cells, and not lymphocytes, stromal cells or normal epithelial cells. To our knowledge, this is the first study to assess the intra-tumoural expression patterns of GFI1 and TNFRSF11A and to validate their microarray expression profiles using RNAscope. We also demonstrate the utility of RNAscope(®) technology to show that expression differences are derived from carcinoma cells rather than from cells located in the tumour microenvironment.
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spelling pubmed-64027182019-03-11 Assessment of intra-tumoural colorectal cancer prognostic biomarkers using RNA in situ hybridisation Morley-Bunker, Arthur Pearson, John Currie, Margaret J. Morrin, Helen Whitehead, Martin R. Eglinton, Tim Walker, Logan C. Oncotarget Research Paper Genome-wide expression studies using microarrays and RNAseq have increased our understanding of colorectal cancer development. Translating potential gene biomarkers from these studies for clinical utility has typically relied on PCR-based technology and immunohistochemistry. Results from these techniques are limited by tumour sample heterogeneity and the lack of correlation between mRNA transcript abundance and corresponding protein levels. The aim of this research was to investigate the clinical utility of the RNA in situ hybridisation technique, RNAscope(®), for measuring intra-tumoural gene expression of potential prognostic markers in a colorectal cancer cohort. Two candidate gene markers (GFI1 and TNFRSF11A) assessed in this study were identified from a previous study led by the The Cancer Genome Atlas (TCGA) Network, and analysis was performed on 112 consecutively collected, archival FFPE colorectal cancer tumour samples. Consistent with the TCGA Network study, we found reduced GFI1 expression was associated with high-grade and left-sided tumours, and reduced TNFRSF11A expression was associated with metastasis and high nodal involvement. RNAscope(®) combined with image analysis also enabled quantification of GFI1 and TNFRSF11A mRNA expression levels at the single cell level, allowing cell-type determination. These data showed that reduced mRNA transcript abundance measured in patients with poorer prognosis occurred in carcinoma cells, and not lymphocytes, stromal cells or normal epithelial cells. To our knowledge, this is the first study to assess the intra-tumoural expression patterns of GFI1 and TNFRSF11A and to validate their microarray expression profiles using RNAscope. We also demonstrate the utility of RNAscope(®) technology to show that expression differences are derived from carcinoma cells rather than from cells located in the tumour microenvironment. Impact Journals LLC 2019-02-15 /pmc/articles/PMC6402718/ /pubmed/30858927 http://dx.doi.org/10.18632/oncotarget.26675 Text en Copyright: © 2019 Morley-Bunker et al. http://creativecommons.org/licenses/by/3.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License 3.0 (http://creativecommons.org/licenses/by/3.0/) (CC BY 3.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Paper
Morley-Bunker, Arthur
Pearson, John
Currie, Margaret J.
Morrin, Helen
Whitehead, Martin R.
Eglinton, Tim
Walker, Logan C.
Assessment of intra-tumoural colorectal cancer prognostic biomarkers using RNA in situ hybridisation
title Assessment of intra-tumoural colorectal cancer prognostic biomarkers using RNA in situ hybridisation
title_full Assessment of intra-tumoural colorectal cancer prognostic biomarkers using RNA in situ hybridisation
title_fullStr Assessment of intra-tumoural colorectal cancer prognostic biomarkers using RNA in situ hybridisation
title_full_unstemmed Assessment of intra-tumoural colorectal cancer prognostic biomarkers using RNA in situ hybridisation
title_short Assessment of intra-tumoural colorectal cancer prognostic biomarkers using RNA in situ hybridisation
title_sort assessment of intra-tumoural colorectal cancer prognostic biomarkers using rna in situ hybridisation
topic Research Paper
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6402718/
https://www.ncbi.nlm.nih.gov/pubmed/30858927
http://dx.doi.org/10.18632/oncotarget.26675
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