Statistical analysis of an RNA titration series evaluates microarray precision and sensitivity on a whole-array basis. - Andrew J. Holloway; Alicia Oshlack; Dileepa S. Diyagama; David D. L. Bowtell; Gordon K. Smyth (BMC Bioinform., 2006)

Using DNA microarrays to study gene expression in closely related species. - Alicia Oshlack; Adrien E. Chabot; Gordon K. Smyth; Yoav Gilad (Bioinform., 2007)

A comparison of background correction methods for two-colour microarrays. - Matthew E. Ritchie; Jeremy David Silver; Alicia Oshlack; Melissa Holmes; Dileepa S. Diyagama; Andrew J. Holloway; Gordon K. Smyth (Bioinform., 2007)

Bpipe: a tool for running and managing bioinformatics pipelines. - Simon P. Sadedin; Bernard J. Pope; Alicia Oshlack (Bioinform., 2012)

Genotyping microsatellites in next-generation sequencing data. - Harriet Dashnow; Susan Tan; Debjani Das; Simon Easteal; Alicia Oshlack (BMC Bioinform., 2015)

missMethyl: an R package for analyzing data from Illumina's HumanMethylation450 platform. - Belinda Phipson; Jovana Maksimovic; Alicia Oshlack (Bioinform., 2016)

A cross-package Bioconductor workflow for analysing methylation array data. - Jovana Maksimovic; Belinda Phipson; Alicia Oshlack (F1000Research, 2016)

Exploring the single-cell RNA-seq analysis landscape with the scRNA-tools database. - Luke Zappia; Belinda Phipson; Alicia Oshlack (PLoS Comput. Biol., 2018)

SuperFreq: Integrated mutation detection and clonal tracking in cancer. - Christoffer Flensburg; Tobias Sargeant; Alicia Oshlack; Ian J. Majewski (PLoS Comput. Biol., 2020)

Detecting copy number alterations in RNA-Seq using SuperFreq. - Christoffer Flensburg; Alicia Oshlack; Ian J. Majewski (Bioinform., 2021)

propeller: testing for differences in cell type proportions in single cell data. - Belinda Phipson; Choon Boon Sim; Enzo R. Porrello; Alex W. Hewitt; Joseph E. Powell; Alicia Oshlack (Bioinform., 2022)