Dr Ashley Waardenberg ~ Research Fellow - Bioinformatics

Ashley Waardenberg is a Research Fellow in Bioinformatics at the Australian Institute of Tropical Health and Medicine (AITHM). He is also a Theme Leader (Health and Disease in the Tropics) at the Centre for Tropical Bioinformatics and Molecular Biology, James Cook University, and co-founder of the Australian Bioinformatics and Computational Biology Society (ABACBS).

Ashley completed his PhD in Systems Biology (2012), jointly between CSIRO (Livestock Genomics) and Griffith University (Eskitis Institute), QLD, Australia and has held research positions at the Victor Chang Cardiac Research Institute (Sydney), Children’s Medical Research Institute (Sydney) and European Molecular Biology Laboratory (Germany).

His research interests are focused around using novel technologies and methods for understanding mechanisms of disease, with the view to identifying suitable diagnostic and/or treatment approaches.

Interests

Research

• Utilising and developing bioinformatics and statistical approaches (including machine learning) to elucidate mechanisms of disease.
• Transcriptomics, Proteomics, Genomics

Experience

• 2017 to 2018 - Research Fellow, European Molecular Biology Laboratory (Germany)
• 2015 to 2017 - Conjoint Lecturer, University of Sydney (Sydney, Australia)
• 2015 to 2017 - Research Fellow, Children's Medical Research Insitute (Sydney, Australia)
• 2012 to 2015 - Research Fellow, Victor Chang Cardiac Research Insitute (Sydney, Australia)

Research Disciplines

• Biochemistry and Cell Biology (0601)
• Paediatrics and Reproductive Medicine (1114)

Socio-Economic Objectives

• Expanding Knowledge (9701)

Awards

• 2010 - CSIRO Chairman's Medal

These are the most recent publications associated with this author. To see a detailed profile of all publications stored at JCU, visit ResearchOnline@JCU. Hover over Altmetrics badges to see social impact.

Journal Articles

• Engholm-Keller K, Waardenberg A, Müller J, Wark J, Fernando R, Arthur J, Robinson P, Dietrich D, Schoch S, Graham M, and (in press) The temporal profile of activity-dependent presynaptic phospho-signalling reveals long-lasting patterns of poststimulus regulation. PLoS Biology, 17 (3).
• Bottje W, Kong B, Reverter A, Waardenberg A, Lassiter K and Hudson N (2017) Progesterone signalling in broiler skeletal muscle is associated with divergent feed efficiency. BMC Systems Biology, 11.
• Ramialison M, Waardenberg A, Schonrock N, Doan T, de Jong D, Bouveret R and Harvey R (2017) Analysis of steric effects in DamID profiling of transcription factor target genes. Genomics, 109 (2). pp. 75-82
• Waardenberg A, Homan B, Mohamed S, Harvey R and Bouveret R (2016) Prediction and validation of protein–protein interactors from genome-wide DNA-binding data using a knowledge-based machine-learning approach. Open Biology, 6.
• Bouveret R, Waardenberg A, Schonrock N, Ramialison M, Doan T, de Jong D, Bondue A, Kaur G, Mohamed S, Fonoudi H, Chen C, Wouters M, Bhattacharya S, Plachta N, Dunwoodie S, Chapman G, Blanpain C and Harvey R (2015) NKX2-5 mutations causative for congenital heart disease retain functionality and are directed to hundreds of targets. eLife, 4.
• Cannon L, Yu Z, Marciniec T, Waardenberg A, Iismaa S, Nikolova-Krstevski V, Neist E, Ohanian M, Qiu M, Rainer S, Harvey R, Feneley M, Graham R and Fatkin D (2015) Irreversible triggers for hypertrophic cardiomyopathy are established in the early postnatal period. Journal of the American College of Cardiology, 65 (6). pp. 560-569
• Kozlov S, Waardenberg A, Engholm-Keller K, Arthur J, Graham M and Lavin M (2015) Reactive oxygen species (ROS)-activated ATM-dependent phosphorylation of cytoplasmic substrates identified by large-scale phosphoproteomics screen. Molecular and Cellular Proteomics, 15 (3). pp. 1032-1047
• Waardenberg A, Bassett S, Bouveret R and Harvey R (2015) CompGO: an R package for comparing and visualizing gene ontology enrichment differences between DNA binding experiments. BMC Bioinformatics, 16.
• Sun W, Hudson N, Reverter A, Waardenberg A, Tellam R, Vuocolo T, Byrne K and Dalrymple B (2012) An always correlated gene expression landscape for ovine skeletal muscle, lessons learnt from comparison with an “equivalent” bovine landscape. BMC Research Notes, 5.
• Waardenberg A, Bernardo B, Ng D, Shepherd P, Cemerlang N, Sbroggiò M, Wells C, Dalrymple B, Brancaccio M, Lin R, McMullen J and (2011) Phosphoinositide 3-Kinase (PI3K(p110α)) directly regulates key components of the Z-disc and cardiac structure. Journal of Biological Chemistry, 286 (35). pp. 30837-30846
• The Bovine Genome Sequencing and Analysis Consortium , Elsik C, Tellam R and Worley K (2009) The genome sequence of Taurine cattle: a window to ruminant biology and evolution. Science, 324 (5926). pp. 522-528
• Waardenberg A, Reverter A, Wells C and Dalrymple B (2008) Using a 3D virtual muscle model to link gene expression changes during myogenesis to protein spatial location in muscle. BMC Systems Biology, 2.

Advisory Accreditation: I can be on your Advisory Panel as a Primary or Secondary Advisor.

These Higher Degree Research projects are either current or by students who have completed their studies within the past 5 years at JCU. Linked titles show theses available within ResearchOnline@JCU.

Current

• Molecular profiling of immunity to infectious diseases using human challenge models (PhD , Secondary Advisor)

The map shows research collaborations by institution from the past 7 years.
Note: Map points are indicative of the countries or states that institutions are associated with.