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Biology and Biochemistry

D-Index
65
Citations
34981
World Ranking
8924
National Ranking
232

Research.com Recognitions

  • 2021 - Fellow of the Australian Academy of Health and Medical Science

Overview

Alicia Oshlack is affiliated with the Peter MacCallum Cancer Centre in Australia. Their research spans several fields, primarily within Biochemistry, Genetics, and Molecular Biology, with significant contributions to Medicine. They have published extensively in subfields such as Molecular Biology, Cancer Research, Genetics, Public Health, Environmental and Occupational Health, and Pulmonary and Respiratory Medicine.

The scientist's work covers a range of topics with particular emphasis on Single-cell and spatial transcriptomics, RNA modifications and cancer, Genomics and Phylogenetic Studies, Cancer Genomics and Diagnostics, Acute Lymphoblastic Leukemia research, Epigenetics and DNA Methylation, and Genomics and Rare Diseases.

Frequent coauthors collaborating with Alicia Oshlack include Paul G. Ekert, N. Davidson, Jovana Maksimovic, Breon Schmidt, and Ian J. Majewski. Their research has appeared primarily in venues such as bioRxiv (Cold Spring Harbor Laboratory), Zenodo (CERN European Organization for Nuclear Research), Genome biology, Blood Advances, and Bioinformatics.

Recent publications include:

  • propeller: testing for differences in cell type proportions in single cell data, 2022, Bioinformatics
  • Gene set enrichment analysis for genome-wide DNA methylation data, 2021, Genome biology
  • A systematic benchmark of Nanopore long read RNA sequencing for transcript level analysis in human cell lines, 2021, bioRxiv (Cold Spring Harbor Laboratory)
  • Sierra: discovery of differential transcript usage from polyA-captured single-cell RNA-seq data, 2020, Genome biology
  • Large-scale manipulation of promoter DNA methylation reveals context-specific transcriptional responses and stability, 2022, Genome biology

Alicia Oshlack has been recognized as a Fellow of the Australian Academy of Health and Medical Science, awarded in 2021. This honor is recorded without additional citation details.

Best Publications

  • A scaling normalization method for differential expression analysis of RNA-seq data

    Mark D Robinson;Mark D Robinson;Alicia Oshlack

  • Gene ontology analysis for RNA-seq: accounting for selection bias

    Matthew D Young;Matthew J Wakefield;Gordon K Smyth;Alicia Oshlack

  • A comparison of background correction methods for two-colour microarrays

    Matthew E. Ritchie;Jeremy Silver;Alicia Oshlack;Melissa Holmes

  • From RNA-seq reads to differential expression results.

    Alicia Oshlack;Mark D Robinson;Mark D Robinson;Matthew D Young

  • SWAN: Subset-quantile within array normalization for illumina infinium HumanMethylation450 BeadChips.

    Jovana Maksimovic;Lavinia Gordon;Alicia Oshlack

  • Splatter: simulation of single-cell RNA sequencing data

    Luke Zappia;Luke Zappia;Belinda Phipson;Alicia Oshlack;Alicia Oshlack

  • Clustering trees: a visualization for evaluating clusterings at multiple resolutions

    Luke Zappia;Alicia Oshlack

  • missMethyl: an R package for analyzing data from Illumina’s HumanMethylation450 platform

    Belinda Phipson;Jovana Maksimovic;Alicia Oshlack

  • Transcript length bias in RNA-seq data confounds systems biology

    Alicia Oshlack;Matthew J Wakefield

  • Corset: enabling differential gene expression analysis for de novo assembled transcriptomes

    Nadia M Davidson;Alicia Oshlack;Alicia Oshlack

  • Expression profiling in primates reveals a rapid evolution of human transcription factors

    Yoav Gilad;Yoav Gilad;Alicia Oshlack;Gordon K. Smyth;Terence P. Speed;Terence P. Speed

  • A prospective evaluation of whole-exome sequencing as a first-tier molecular test in infants with suspected monogenic disorders

    Zornitza Stark;Tiong Y. Tan;Belinda Chong;Gemma R. Brett

  • Diagnostic Impact and Cost-effectiveness of Whole-Exome Sequencing for Ambulant Children With Suspected Monogenic Conditions

    Tiong Yang Tan;Oliver James Dillon;Zornitza Stark;Deborah Schofield;Deborah Schofield

  • ChIP-seq analysis reveals distinct H3K27me3 profiles that correlate with transcriptional activity

    Matthew D. Young;Tracy A. Willson;Matthew J. Wakefield;Evelyn Trounson

  • Disorders of sex development: insights from targeted gene sequencing of a large international patient cohort

    Stefanie Eggers;Simon Sadedin;Jocelyn A. van den Bergen;Gorjana Robevska

  • Array-Based Gene Discovery with Three Unrelated Subjects Shows SCARB2/LIMP-2 Deficiency Causes Myoclonus Epilepsy and Glomerulosclerosis

    Samuel F Berkovic;Samuel F Berkovic;Leanne M Dibbens;Leanne M Dibbens;Alicia Oshlack;Jeremy D Silver;Jeremy D Silver

  • Exploring the single-cell RNA-seq analysis landscape with the scRNA-tools database.

    Luke Zappia;Belinda Phipson;Alicia Oshlack

  • Natural selection on gene expression.

    Yoav Gilad;Alicia Oshlack;Scott A. Rifkin

  • Corset: enabling differential gene expression analysis for

    Nadia M Davidson;Alicia Oshlack

  • Patient safety in genomic medicine: an exploratory study.

    Diane M. Korngiebel;Stephanie M. Fullerton;Wylie Burke

Frequent Co-Authors

Gordon K. Smyth
Gordon K. Smyth Walter and Eliza Hall Institute of Medical Research
Edouard G. Stanley
Edouard G. Stanley University of Melbourne
Melissa H. Little
Melissa H. Little Murdoch Children's Research Institute
Andrew H. Sinclair
Andrew H. Sinclair University of Melbourne
Paul G Ekert
Paul G Ekert University of New South Wales
Andrew G. Elefanty
Andrew G. Elefanty University of Melbourne
Marnie E. Blewitt
Marnie E. Blewitt Walter and Eliza Hall Institute of Medical Research
Zornitza Stark
Zornitza Stark University of Melbourne
Craig A. Smith
Craig A. Smith Monash University
Mark D. Robinson
Mark D. Robinson University of Zurich

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