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Oligo microarray construction was performed by Agilent Technologies Inc.
Sampling for sequencing and tissue microarray construction was limited, and intratumoral heterogeneity was not addressed.
Microarray construction was similar to that described in Whitfield et al. (2002).
The method for tissue microarray construction was described in the Appendix (online only).
Reference DNA (0.5 μg from the mix used for microarray construction) was labeled with Cy3-dUTP.
The tissue microarray construction was done essential as described by Kononen et al (1998).
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Clones picked for microarray construction were judged to be lowly or moderately expressed.
The cDNA probes for microarray construction were obtained from two different sources.
Methods for tissue microarray construction were previously described (Eustace et al, 2013a).
A detailed description of the probe cDNA library generation and characterisation, along with the microarray construction, is provided elsewhere [ 2].
The 1578 cDNA clones used for microarray construction were a combination of two separate libraries, namely 810 cDNA library clones and 768 cDNA-AFLP cloned fragments.
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