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Andrew J. Holloway
Researcher at Peter MacCallum Cancer Centre
Publications - 24
Citations - 3448
Andrew J. Holloway is an academic researcher from Peter MacCallum Cancer Centre. The author has contributed to research in topics: Gene expression profiling & Gene. The author has an hindex of 18, co-authored 24 publications receiving 3285 citations. Previous affiliations of Andrew J. Holloway include Walter and Eliza Hall Institute of Medical Research & Foundation Center.
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Journal ArticleDOI
A comparison of background correction methods for two-colour microarrays
Matthew E. Ritchie,Jeremy D. Silver,Alicia Oshlack,Melissa L. Holmes,Dileepa Diyagama,Andrew J. Holloway,Gordon K. Smyth +6 more
TL;DR: The model-based correction methods are shown to be markedly superior to the usual practice of subtracting local background estimates, and methods which stabilize the variances of the log-ratios along the intensity range perform the best.
Journal ArticleDOI
Identification and functional significance of genes regulated by structurally different histone deacetylase inhibitors
Melissa J. Peart,Gordon K. Smyth,Ryan van Laar,David D.L. Bowtell,Victoria M. Richon,Paul A. Marks,Andrew J. Holloway,Ricky W. Johnstone +7 more
TL;DR: The ability of HDACi to target multiple apoptotic and cell proliferation pathways may provide a competitive advantage over other chemotherapeutic agents because suppression/loss of a single pathway may not confer resistance to these agents.
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Empirical array quality weights in the analysis of microarray data
Matthew E. Ritchie,Dileepa Diyagama,Jody Neilson,Ryan van Laar,Alexander Dobrovic,Andrew J. Holloway,Gordon K. Smyth +6 more
TL;DR: A graduated approach to array quality is considered based on empirical reproducibility of the gene expression measures from replicate arrays, and allows poorer quality arrays, which would otherwise be discarded, to be included in an analysis.
Journal ArticleDOI
Options available--from start to finish--for obtaining data from DNA microarrays II.
TL;DR: The most recent equipment, reagents and protocols available to the researcher are discussed, as well as describing data analysis and storage options available from the evolving field of microarray informatics.
Journal ArticleDOI
An Expression-Based Site of Origin Diagnostic Method Designed for Clinical Application to Cancer of Unknown Origin
Richard W. Tothill,Adam Kowalczyk,Danny Rischin,Alex Bousioutas,Izhak Haviv,Ryan van Laar,Paul Waring,John Zalcberg,Robyn L. Ward,Andrew V. Biankin,Robert L. Sutherland,Susan M. Henshall,Kwun M. Fong,Jonathan R. Pollack,David D.L. Bowtell,Andrew J. Holloway +15 more
TL;DR: This work builds a clinically robust site of origin classifier with the ultimate aim of applying it to determine the origin of cancer of unknown primary (CUP), and shows that the microarray SVM classifier was capable of making high confidence predictions in 11 of 13 cases.