Overview
Background
Dr Shim's research revolves around developing computational methods to understand determinants of cell identity by analysing various genomic data. Trained in bioinformatics, pharmacy and biomedical science (majoring in biochemistry and immunology), Dr Shim incorporates inter-disciplinary knowledge to solve research questions in both basic science and translational medicine.
Availability
- Dr Woo Jun Shim is:
- Available for supervision
Qualifications
- Bachelor of Biomedical Science, University of Adelaide
- Bachelor (Honours), The University of Queensland
- Masters (Coursework), The University of Queensland
- Doctor of Philosophy, The University of Queensland
Research impacts
Dr Shim's discovery has helped address an area of unmet need in genetic analysis pipelines as evidenced by significant international uptake. Working with UQ’s main commercialisation company UniQuest, Dr Shim's work formed the basis for successful contracts with industry partners including HAYA Therapeutics (Switzerland), Merck (Germany), Mogrify (UK), and ConcR (UK) to improve the accuracy and efficiency of clinical diagnostic and drug discovery pipelines. Dr Shim was awarded a UQ Early-Mid Career Researcher (EMCR) Industry Engagement Award in 2022 for his successful engagement with HAYA Therapeutics and EMMA Whitelaw ECR publication award in 2022 for his work on a highly scalable computational framework to discover key regulatory genes.
Works
Search Professor Woo Jun Shim’s works on UQ eSpace
2023
Journal Article
PDGF-AB Reduces Myofibroblast Differentiation Without Increasing Proliferation After Myocardial Infarction
Hume, Robert D., Deshmukh, Tejas, Doan, Tram, Shim, Woo Jun, Kanagalingam, Shaan, Tallapragada, Vikram, Rashid, Fairooj, Marcuello, Maria, Blessing, Daniel, Selvakumar, Dinesh, Raguram, Kalyan, Pathan, Faraz, Graham, Dinny, Ounzain, Samir, Kizana, Eddy, Harvey, Richard P., Palpant, Nathan J. and Chong, James J.H. (2023). PDGF-AB Reduces Myofibroblast Differentiation Without Increasing Proliferation After Myocardial Infarction. JACC: Basic to Translational Science, 8 (6), 658-674. doi: 10.1016/j.jacbts.2022.11.006
2023
Journal Article
A transposable element into the human long noncoding RNA CARMEN is a switch for cardiac precursor cell specification
Plaisance, Isabelle, Chouvardas, Panagiotis, Sun, Yuliangzi, Nemir, Mohamed, Aghagolzadeh, Parisa, Aminfar, Farhang, Shen, Sophie, Shim, Woo Jun, Rochais, Francesca, Johnson, Rory, Palpant, Nathan and Pedrazzini, Thierry (2023). A transposable element into the human long noncoding RNA CARMEN is a switch for cardiac precursor cell specification. Cardiovascular Research, 119 (6), 1361-1376. doi: 10.1093/cvr/cvac191
2022
Conference Publication
H3K27me3 predicted regulation of gene expression linked to calcium quantification in Nelore muscle
Afonso, J., Shim, W.J., Boden, M., Palpant, N., Fortes, M.R.S., Diniz, W.J.S., Lima, A.O., Rocha, M.I.P., Cardoso, T.F., Bruscadin, J.J., Gromboni, C.F., Nogueira, A.R.A., Mourão, G.B., Zerlotini, A., Coutinho, L.L. and Regitano, L.C.A. (2022). H3K27me3 predicted regulation of gene expression linked to calcium quantification in Nelore muscle. 12th World Congress on Genetics Applied to Livestock Production (WCGALP), Rotterdam, Netherlands, 3-8 July 2022. Wageningen, Netherlands: Wageningen Academic Publishers. doi: 10.3920/978-90-8686-940-4_553
2022
Conference Publication
Alternative splicing of a transposable element into the human long noncoding RNA CARMEN is a switch for cardiac precursor cell specification
Plaisance, Isabelle, Chouvardas, Panagiotis, Sun, Yuliangzi, Nemir, Mohamed, Aghagolzadeh, Parisa, Aminfar, Farhang, Shen, Sophie, Shim, Woo Jun, Rochais, Francesca, Johnson, Rory and Pedrazzini, Thierry (2022). Alternative splicing of a transposable element into the human long noncoding RNA CARMEN is a switch for cardiac precursor cell specification. XXIV World Congress of the International Society for Heart Research, Berlin, Germany, 12–15 June 2022. London, United Kingdom: Academic Press. doi: 10.1016/j.yjmcc.2022.08.344
2021
Journal Article
Integrating single-cell genomics pipelines to discover mechanisms of stem cell differentiation
Shen, Sophie, Sun, Yuliangzi, Matsumoto, Maika, Shim, Woo Jun, Sinniah, Enakshi, Wilson, Sean B., Werner, Tessa, Wu, Zhixuan, Bradford, Stephen T., Hudson, James, Little, Melissa H., Powell, Joseph, Nguyen, Quan and Palpant, Nathan J. (2021). Integrating single-cell genomics pipelines to discover mechanisms of stem cell differentiation. Trends in Molecular Medicine, 27 (12), 1135-1158. doi: 10.1016/j.molmed.2021.09.006
2021
Other Outputs
Identifying genetic regulators of cell fate through computational analysis of epigenetic repression
Shim, Woo Jun (2021). Identifying genetic regulators of cell fate through computational analysis of epigenetic repression. PhD Thesis, School of Chemistry and Molecular Biosciences, The University of Queensland. doi: 10.14264/4d7b321
2021
Journal Article
Elp2 mutations perturb the epitranscriptome and lead to a complex neurodevelopmental phenotype
Kojic, Marija, Gawda, Tomasz, Gaik, Monika, Begg, Alexander, Salerno-Kochan, Anna, Kurniawan, Nyoman D., Jones, Alun, Drożdżyk, Katarzyna, Kościelniak, Anna, Chramiec-Głąbik, Andrzej, Hediyeh-Zadeh, Soroor, Kasherman, Maria, Shim, Woo Jun, Sinniah, Enakshi, Genovesi, Laura A., Abrahamsen, Rannvá K., Fenger, Christina D., Madsen, Camilla G., Cohen, Julie S., Fatemi, Ali, Stark, Zornitza, Lunke, Sebastian, Lee, Joy, Hansen, Jonas K., Boxill, Martin F., Keren, Boris, Marey, Isabelle, Saenz, Margarita S., Brown, Kathleen ... Wainwright, Brandon J. (2021). Elp2 mutations perturb the epitranscriptome and lead to a complex neurodevelopmental phenotype. Nature Communications, 12 (1) 2678, 2678. doi: 10.1038/s41467-021-22888-5
2009
Conference Publication
Sortilin localisation in the rat retina during early postnatal development
Shim, W. J. and Firth, S. I. (2009). Sortilin localisation in the rat retina during early postnatal development. 29th Annual Meeting Australian Neuroscience Society, Canberra, ACT, Australia, 27-30 January 2009.
Supervision
Availability
- Dr Woo Jun Shim is:
- Available for supervision
Looking for a supervisor? Read our advice on how to choose a supervisor.
Supervision history
Current supervision
-
Doctor Philosophy
Bioinformatics of epigenetics at multiple scales: from evolution of epigenetic factors to tracing their marks in organellar development
Associate Advisor
Other advisors: Professor Mikael Boden
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Doctor Philosophy
Machine learning analysis of clinical data to improve diagnosis and treatment of heart disease
Associate Advisor
Other advisors: Professor Nathan Palpant
Completed supervision
-
2024
Doctor Philosophy
Using signatures of cell identity to improve cell type prediction in single cell analysis pipelines
Associate Advisor
Other advisors: Dr Quan Nguyen, Professor Nathan Palpant
Media
Enquiries
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