People
Research Groups
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David Balding
Computational statistics applied to population, evolutionary, medical and forensic genetics
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Yao-ban Chan
Application of mathematical and statistical methods to phylogenetics and evolutionary biology
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Irene Gallego Romero
Functional, regulatory and comparative genomics; pluripotent stem cells as systems for genomic studies in non-model mammals
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Kim-Anh Lê Cao
Multivariate statistics, ‘omics data integration, feature selection, microbiome, computational statistical learning, R software
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Stephen Leslie
Statistical genetics with a particular interest in developing methods for, and applying them to, studies of population structure and immunogenetics
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Davis McCarthy
Computational statistics, statistical genetics and bioinformatics, multi-omic data analysis
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Heejung Shim
Statistical and computational approaches for the analysis of complex and large-scale genomic data with applications to functional genomics and molecular/trait evolution
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Michael Stumpf
Statistical, mathematical, evolutionary and functional analysis of molecular interaction networks and dynamical processes in biological systems
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Damjan Vukcevic
Statistical genetics, association analysis, imputation, computational statistics, Bayesian data analysis
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Research Manager - Andrew Siebel
Andrew completed his undergraduate BSc(Hons) degree in Zoology and Physiology at The University of Melbourne (1996-1999). His PhD was in the field of Reproductive
Endocrinology enrolled through the Department of Zoology, the University of Melbourne and Howard Florey Institute. Andrew then received a prestigious NHMRC Early Career Research Fellowship (2005-2009) to work on developmental programming of adult disease in the Department of Physiology. He moved to the Baker IDI Heart & Diabetes Research Institute in 2009 to work firstly in the Human Epigenetics laboratory, then the Metabolic and Vascular Physiology laboratory (2010-2015). His research interests include cardiovascular physiology, glucose metabolism, lipid biology and interventional clinical trials.
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Genomic Data Specialist - Bobbie Shaban
Originally from Perth, Bobbie obtained a double degree in Molecular Biology and Computer Science at Murdoch University. He has worked in a number of Bioinformatics roles including as a bioinformatics
officer at the Centre for Comparative Genomics at Murdoch University, the Health Protection Agency UK (Now Public Health England) where he worked on The FF100 Swine flu database and also the Enteric Molecular Typing Network for the 5 nations and at the Australian Genome Research Facility here in Melbourne. In previous roles he was the administrator of the Cluster scheduling software (Sun Grid Engine) and was a Bioinformatician specialising in Genomic Assembly, RNA virus discovery, High performance computing and software pipeline optimisation. He also has experience in Web development, Database admin and creation, a number of computing languages including PERL, PHP and the MVC Frameworks Laravel and Ruby on Rails.
Follow Bobbie's MIG I.T. blog here. -
PhD Students
Katalina Bobowik
Project title: Transcriptomic characterisation of immune and disease-related traits within Island Southeast Asia
Github link
Supervisor: Irene Gallego RomeroQian Feng
Project title: Phylogenetic modelling of malaria var genes
Github link
Supervisor: Yao-ban Chan/Heejung ShimAnubhav Kaphle
Project title: Statistical methods for trans-ethnic genetic studies
Google Scholar link
Supervisor: David BaldingAli Mahmoudi
Project title: Inference under the coalescent with recombination
Github link
Supervisor: David BaldingElisabeth Roesch
Project title: Hybrid modeling in Systems Biology
Github link
Supervisor: Michael StumpfGeorgia Tsambos
Project title: Statistical techniques for studying admixture and local ancestry
Github link
Supervisors: Damjan Vukcevic & Stephen LeslieDavide Vespasiani
Project title: Functional analysis of archaic variants in modern Indonesians
Google scholar link
Supervisor: Irene Gallego RomeroYiwen (Eva) Wang
Project title: Managing batch effects in microbiome data
Github link
Supervisor: Kim-Anh Lê Cao -
Postdocs
Christina Azodi
Bio: Working at the interface of data science and bioinformatics to study the effects of DNA variation on gene expression at the single-cell level.
GitHub link
Supervisor: Davis McCarthyAshley Farlow
Website
Google scholar link
Supervisor: Stephen LeslieAnissa Guillemin
Project title: Stochastic gene expression implications in cell fate decision-making.
Bio: I did my PhD in Biology in the Laboratory of Biology and Cell Modeling at the ENS of Lyon (France) in 2018, under the supervision of Olivier Gandrillon. We developed research projects with multidisciplinary approaches with particularly interest in understanding cell decision-making. Since February 2019, I have been working as a Postdoctoral Research Fellow in the Theoretical Systems Biology group at MIG with Michael Stumpf (Group Leader). Our work is focused on understanding the mechanisms behind the stochastic gene expression during cell processes, such as stem cell or progenitor differentiation using single cell data analyses and modeling.
Google scholar link
Supervisor: Michael StumpfAl J Abadi
Bio: Al has an extensive academic and industrial background in computational science and modeling with versatile applications in Engineering, Pharmaceutics, and Computational Biology. His research at MIG is primarily focussed on novel approaches in multivariate integrative data analysis methods with applications in high-throughput single-cell sequencing technologies. His numerical research experience includes application of various discretisation methods and Direct Numerical Simulation to linear and non-linear partial differential equations, as well as population Pharmacokinetics modelling using non-linear mixed-effects models.
GitHub link
Supervisor: Kim-Anh Lê Cao
STAFF & STUDENTS
Postdocs | Students |
Christine Azodi (McCarthy) | Laura Cook (PhD - Gallego Romero) |
Lucy Ham (Stumpf) | Megan Coomer (PhD - Stumpf) |
Sudaraka Mallawaarachchi (Balding) | Leo Diaz (PhD - Stumpf) |
Allan Motyer (Leslie) | Anna Farre Orteu (PhD - Gallego Romero) |
Puxue Qiao (McCarthy) | Chengyu Li (PhD - Balding) |
David Squire (Leslie) | Qiuyi Li (PhD - Chan) |
Jeff Paril (PhD - Balding) | |
Matthew Silcocks (PhD - Leslie/Farlow) | |
Yupei You (PhD - Shim) | |
Joshua Forrest (PhD - Stumpf) | |
Recent Visitors | |
Garrett Hellenthal (University College London, UK) - April-June 2019 | |
Murray Cox (Massey University, New Zealand) - February-March 2019 | |
Hanaisa Sant'Anna de Pla (Universidade Federal de Minas Gerais, Brazil) - August 2018-August 2019 | |
Sebastien Dejean (Toulouse University, France) - July-August 2018 | |
Jukka Corander (University of Oslo and University of Helsinki, Finland) - December 2017-January 2018; November 2019 | |
Tatiana Hessab (Perito Criminal do IPPGF, Rio de Janeiro Area, Brazil) - July 2017-January 2018 | |
Laetitia Cardonnna (IRSTEA, France) - November-December 2017 & April 2019 | |
Olivier Chapleur (IRSTEA, France) - September-December 2017 & April 2019 | |
Solange Pruilh (INSA Toulouse, France) - July-September 2017 | |
Doug Speed (Aarhus University, Denmark) - April-May 2017 | |
Paul O'Reilly (King's College London, UK) - April 2017 | |
John Whittaker (GSK, UK) - April 2017 | |
ASSOCIATE MEMBERS
Melbourne Integrative Genomics (MIG), The University of Melbourne, welcomes applications to become an Associate Member (AM). AMs can be researchers at the University of Melbourne or other Parkville research institutes, or any others who have research interests relevant to integrative genomics and can benefit from and contribute to MIG as indicated below.
Meet our Associate Members
Benefits of AM status can include:
- Help with UoM Honorary or Visiting Researcher status where appropriate
- Card access to MIG space
- Hot desk space for group leaders (shared office)
- Hot desk space for students & postdocs (open offices)
- Use of meeting room or other bookable rooms
- Infrastructure access (computing allocation)
- Opportunity to contribute to the planning of, and to participate in, MIG activities (such as workshops and seminars)
In return, AMs are expected to:
- Contribute to MIG activities
- Develop collaborations with Core research group members
- If MIG’s resources are used, appropriate affiliation should be included in publications
- Provide photo and brief bio for website
- Contribute to MIG annual reporting as requested
Interested in becoming an Associate Member? Contact the Research Manager for more information.
High Performance Compute cluster [MIG partition]
Managed by Bobbie Shaban (Genomic Data Specialist)
384 cores, 3.1Tb RAM, 200Tb storage
Administered by Research Platform Services, University of Melbourne.