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The high-level similarity of some disparate gene expression measures.
Raghavan N, De Bondt AM, Talloen W, Moechars D, Göhlmann HW, Amaratunga D. Raghavan N, et al. Among authors: amaratunga d. Bioinformatics. 2007 Nov 15;23(22):3032-8. doi: 10.1093/bioinformatics/btm448. Epub 2007 Sep 24. Bioinformatics. 2007. PMID: 17893087
Release of (and lessons learned from mining) a pioneering large toxicogenomics database.
Sandhu KS, Veeramachaneni V, Yao X, Nie A, Lord P, Amaratunga D, McMillian MK, Verheyen GR. Sandhu KS, et al. Among authors: amaratunga d. Pharmacogenomics. 2015 Jul;16(8):779-801. doi: 10.2217/pgs.15.38. Epub 2015 Jun 12. Pharmacogenomics. 2015. PMID: 26067483 Free article.
Enriched random forests.
Amaratunga D, Cabrera J, Lee YS. Amaratunga D, et al. Bioinformatics. 2008 Sep 15;24(18):2010-4. doi: 10.1093/bioinformatics/btn356. Epub 2008 Jul 22. Bioinformatics. 2008. PMID: 18650208
Nanoliter high-throughput RT-qPCR: a statistical analysis and assessment.
Dixon JM, Lubomirski M, Amaratunga D, Morrison TB, Brenan CJ, Ilyin SE. Dixon JM, et al. Among authors: amaratunga d. Biotechniques. 2009 May;46(6):ii-viii. doi: 10.2144/000112838. Biotechniques. 2009. PMID: 19480642
I/NI-calls for the exclusion of non-informative genes: a highly effective filtering tool for microarray data.
Talloen W, Clevert DA, Hochreiter S, Amaratunga D, Bijnens L, Kass S, Göhlmann HW. Talloen W, et al. Among authors: amaratunga d. Bioinformatics. 2007 Nov 1;23(21):2897-902. doi: 10.1093/bioinformatics/btm478. Epub 2007 Oct 5. Bioinformatics. 2007. PMID: 17921172
Microarray learning with ABC.
Amaratunga D, Cabrera J, Kovtun V. Amaratunga D, et al. Biostatistics. 2008 Jan;9(1):128-36. doi: 10.1093/biostatistics/kxm017. Epub 2007 Jun 14. Biostatistics. 2008. PMID: 17573363
A consolidated approach to analyzing data from high-throughput protein microarrays with an application to immune response profiling in humans.
Lubomirski M, D'Andrea MR, Belkowski SM, Cabrera J, Dixon JM, Amaratunga D. Lubomirski M, et al. Among authors: amaratunga d, d andrea mr. J Comput Biol. 2007 Apr;14(3):350-9. doi: 10.1089/cmb.2006.0116. J Comput Biol. 2007. PMID: 17563316
Gene expression analysis for high throughput screening applications.
Pinhasov A, Mei J, Amaratunga D, Amato FA, Lu H, Kauffman J, Xin H, Brenneman DE, Johnson DL, Andrade-Gordon P, Ilyin SE. Pinhasov A, et al. Among authors: amaratunga d. Comb Chem High Throughput Screen. 2004 Mar;7(2):133-40. doi: 10.2174/138620704773120810. Comb Chem High Throughput Screen. 2004. PMID: 15032660
Class prediction in toxicogenomics.
Raghavan N, Amaratunga D, Nie AY, McMillian M. Raghavan N, et al. Among authors: amaratunga d. J Biopharm Stat. 2005;15(2):327-41. doi: 10.1081/BIP-200048836. J Biopharm Stat. 2005. PMID: 15796298
Quality control of Platinum Spike dataset by probe-level mixed models.
Khamiakova T, Shkedy Z, Amaratunga D, Talloen W, Göhlmann H, Bijnens L, Kasim A. Khamiakova T, et al. Among authors: amaratunga d. Math Biosci. 2014 Feb;248:1-10. doi: 10.1016/j.mbs.2013.11.004. Epub 2013 Dec 1. Math Biosci. 2014. PMID: 24300569
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