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Tanney A, Oliver GR, Farztdinov V, et al. Generation of a non-small cell lung cancer transcriptome microarray. BMC Med Genomics. 2008;1:20doi: 10.1186/1755-8794-1-20.
Tanney, A., Oliver, G. R., Farztdinov, V., Kennedy, R. D., Mulligan, J. M., Fulton, C. E., Farragher, S. M., Field, J. K., Johnston, P. G., Harkin, D. P., Proutski, V., & Mulligan, K. A. (2008). Generation of a non-small cell lung cancer transcriptome microarray. BMC medical genomics, 120. https://doi.org/10.1186/1755-8794-1-20
Tanney, Austin, et al. "Generation of a non-small cell lung cancer transcriptome microarray." BMC medical genomics vol. 1 (2008): 20. doi: https://doi.org/10.1186/1755-8794-1-20
Tanney A, Oliver GR, Farztdinov V, Kennedy RD, Mulligan JM, Fulton CE, Farragher SM, Field JK, Johnston PG, Harkin DP, Proutski V, Mulligan KA. Generation of a non-small cell lung cancer transcriptome microarray. BMC Med Genomics. 2008 May 30;1:20. doi: 10.1186/1755-8794-1-20. PMID: 18513400; PMCID: PMC2426710.
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BMC Med Genomics. 2008 May 30;1:20. doi: 10.1186/1755-8794-1-20.

Generation of a non-small cell lung cancer transcriptome microarray.

BMC medical genomics

Austin Tanney, Gavin R Oliver, Vadim Farztdinov, Richard D Kennedy, Jude M Mulligan, Ciaran E Fulton, Susan M Farragher, John K Field, Patrick G Johnston, D Paul Harkin, Vitali Proutski, Karl A Mulligan

Affiliations

  1. Almac Diagnostics Ltd, 19 Seagoe Industrial Estate, Craigavon, BT63 5QD, UK. [email protected]

PMID: 18513400 PMCID: PMC2426710 DOI: 10.1186/1755-8794-1-20

Abstract

BACKGROUND: Non-small cell lung cancer (NSCLC) is the leading cause of cancer mortality worldwide. At present no reliable biomarkers are available to guide the management of this condition. Microarray technology may allow appropriate biomarkers to be identified but present platforms are lacking disease focus and are thus likely to miss potentially vital information contained in patient tissue samples.

METHODS: A combination of large-scale in-house sequencing, gene expression profiling and public sequence and gene expression data mining were used to characterise the transcriptome of NSCLC and the data used to generate a disease-focused microarray - the Lung Cancer DSA research tool.

RESULTS: Built on the Affymetrix GeneChip platform, the Lung Cancer DSA research tool allows for interrogation of ~60,000 transcripts relevant to Lung Cancer, tens of thousands of which are unavailable on leading commercial microarrays.

CONCLUSION: We have developed the first high-density disease specific transcriptome microarray. We present the array design process and the results of experiments carried out to demonstrate the array's utility. This approach serves as a template for the development of other disease transcriptome microarrays, including non-neoplastic diseases.

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