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A/Professor Alicia Oshlack
Associate Professor Alicia Oshlack is a leader in implementing new bioinformatics methods in the biomedical context. She is a current National Health Medical Research Council Career Development Fellow with a growing national and international reputation.
A/prof Oshlack's bioinformatics expertise is not just in analysis but also in methods development which leads to many independent research projects and publications. She is best known for her work on the analysis of RNA sequencing data but also works in the fields of epigenetics, clinical genomics and cancer.
She started her research career as an astrophysicist before moving to Walter and Eliza Hall as a post-doctoral scholar in the Bioinformatics division. She joined the Murdoch Children's as Head of Bioinformatics in 2011.
2016: Georgina Sweet award for women in quatitative biomedical research
2011: Ruth Gani Medal for Human Genetics, Australian Academy of Science
Associate Professor Oshlack's research focus is bioinformatics including collaborative analysis of datasets and statistical and computational methods development.
She has four main areas of focus that include gene expression, epigenetics, clinical sequencing and cancer genomics.
Many of these projects have a common theme revolving around the use of high-throughput sequencing data.
- Methods for analysing RNA-sequencing data
- Analysis of epigenetic data
- Clinical genomics data analysis including exome analysis
- Cancer genomics
- Single-cell analysis
NM Davidson, IJ Majewski, A Oshlack, JAFFA: High sensitivity transcriptome-focused fusion gene detection, Genome Medicine (2015), 7:431.
Phipson B, Oshlack A, DiffVar: A new method for detecting differential variability with application to methylation in cancer and aging, Genome Biology (2014) 15 (9), 465?
Oshlack A, A 10-step guide to part conversation for bioinformaticians, Genome Biology, (2013), 14:104
Maksimovic J, Gordon L, Oshlack A, SWAN: Subset Quantile within-Array Normalization for Illumina Infinium HumanMethylation450 BeadChips, Genome Biology, 13 (6), R44 (2012)
Sadedin, S, Pope B, Oshlack A “Bpipe: A Tool for Running and Managing Bioinformatics Pipeline“, Bioinformatics, (2012)
Oshlack, A*, Robinson, MD*, Young, Y*, From reads to results: differential expression using RNA-seq, Genome Biology (2010) 11(12)220
Robinson MD and Oshlack A, Normalization for RNAseq data, Genome Biology (2010), 11(3), R25
Yuxia Zhang, Jovana Maksimovic, Gaetano Naselli, Junyan Qian, Michael Chopin, Marnie E Blewitt, Alicia Oshlack*, Leonard C Harrison*, Genome-wide DNA methylation analysis identifies hypomethylated genes regulated by FOXP3 in human regulatory T cells, Blood (2013), 122,16,2823
Ian J Majewski, Lorenza Mittempergher, Nadia M Davidson, et al., Alvis Brazma, Alicia Oshlack, Michel van den Heuvel, René Bernards, Identification of recurrent FGFR3 fusion genes in lung cancer through kinome-centred RNA sequencing, (2013), The Journal of Pathology, 203,3,270-276