Stewart, JP, Richman, S orcid.org/0000-0003-3993-5041, Maughan, T et al. (3 more authors) (2017) Standardising RNA profiling based biomarker application in cancer - the need for robust control of technical variables. Biochimica et Biophysica Acta (BBA) - Reviews on Cancer, 1868 (1). pp. 258-272. ISSN 0304-419X
Abstract
Histopathology-based staging of colorectal cancer (CRC) has utility in assessing the prognosis of patient subtypes, but as yet cannot accurately predict individual patient’s treatment response. Transcriptomics approaches, using array based or next generation sequencing (NGS) platforms, of formalin fixed paraffin embedded tissue can be harnessed to develop multi-gene biomarkers for predicting both prognosis and treatment response, leading to stratification of treatment. While transcriptomics can shape future biomarker development, currently < 1% of published biomarkers become clinically validated tests, often due to poor study design or lack of independent validation. In this review of a large number of CRC transcriptional studies, we identify recurrent sources of technical variability that encompass collection, preservation and storage of malignant tissue, nucleic acid extraction, methods to quantitate RNA transcripts and data analysis pipelines. We propose a series of defined steps for removal of these confounding issues, to ultimately aid in the development of more robust clinical biomarkers.
Metadata
Item Type: | Article |
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Authors/Creators: |
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Copyright, Publisher and Additional Information: | © 2017 Elsevier B.V. This is an author produced version of a paper published in Biochimica et Biophysica Acta (BBA) - Reviews on Cancer. Uploaded in accordance with the publisher's self-archiving policy. |
Keywords: | Microarray; RNA profiling; NGS; transcriptome; FFPE; biomarker |
Dates: |
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Institution: | The University of Leeds |
Academic Units: | The University of Leeds > Faculty of Medicine and Health (Leeds) > School of Medicine (Leeds) > Leeds Institute of Cancer and Pathology (LICAP) > Pathology & Tumour Biology (Leeds) |
Depositing User: | Symplectic Publications |
Date Deposited: | 23 May 2017 14:47 |
Last Modified: | 23 May 2018 00:38 |
Status: | Published |
Publisher: | Elsevier |
Identification Number: | 10.1016/j.bbcan.2017.05.005 |
Open Archives Initiative ID (OAI ID): | oai:eprints.whiterose.ac.uk:116834 |