Melbourne Integrative Genomics (MIG) is a cross-disciplinary initiative at the interface between biology, mathematics and statistics at the University of Melbourne.
MIG is a leading institution where we use innovative mathematical and computational approaches to answer pressing questions in biology and biomedicine. MIG, which was founded in 2017, fosters a vibrant environment for collaborative research and education.
For more details see our People page.
MIG is co-hosted by the School of BioSciences and School of Mathematics & Statistics. We are supported by the Faculty of Science and Deputy Vice-Chancellor (Research).
Our Twitter updates, contact information, and social media links can be found below.
Research Groups
Click on each group leader for more information about their research.
-
David Balding
Computational statistics applied to population, evolutionary, medical and forensic genetics
-
Yao-ban Chan
Application of mathematical and statistical methods to phylogenetics and evolutionary biology
-
Irene Gallego Romero
Functional, regulatory and comparative genomics; pluripotent stem cells as systems for genomic studies in non-model mammals
-
Kim-Anh Lê Cao
Multivariate statistics, ‘omics data integration, feature selection, microbiome, computational statistical learning, R software
-
Stephen Leslie
Statistical genetics with a particular interest in developing methods for, and applying them to, studies of population structure and immunogenetics
-
Davis McCarthy
Computational statistics, statistical genetics and bioinformatics, multi-omic data analysis
-
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
-
Michael Stumpf
Statistical, mathematical, evolutionary and functional analysis of molecular interaction networks and dynamical processes in biological systems
-
Vanessa Rossetto Marcelino
Microbiome ecology, metagenome-wide metabolic modelling, host-microbe interactions, microbiome manipulation
Current students & staff
Alumni & Former Staff
-
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
Al 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.
GitHub link
Supervisor: Kim-Anh Lê CaoChristina 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 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).
Google scholar link
Supervisor: Michael Stumpf -
Former Staff
Andrew Siebel － Research Manager
Andrew completed his undergraduate BSc(Hons) degre
e 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.Bobbie Shaban (in memorian) － Genomics Data Specialist
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. -
Former Faculty
Damjan Vukcevic
Dr Damjan Vukcevic is a statistician and data scientist, specialising in statistical genetics. He completed a Bachelor of Science (Honours) degree at the University of Melbourne in 2004, including an Honours project in bioinformatics with Professor Terry Speed. He was then awarded a Commonwealth Scholarship to study at the University of Oxford, where he completed a DPhil in statistical genetics with Professor Peter Donnelly. Dr Vukcevic has contributed to a number of important genetic studies, including the landmark multi-disease genome-wide association study by the Wellcome Trust Case Control Consortium, published in Nature in 2007. This received a number of awards, including Research Leader of the Year from Scientific American. Dr Vukcevic has experience working in both an academic and non-academic environment, with a strong grounding in statistical theory, computation and practical data analysis.Dr Vukcevic is currently an Associate Professor at the Department of Econometrics and Business Statistics at Monash University.
-
Past 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
Recent Visitors
- Marko Terzin, PhD candidate, James Cook University, May – July 2023.
- Yi-Wen Hsiao, PhD candidate, July 2022 – July 2023.
- Prof Ivy Chung, University of Malaya, April 2023.
- Quentin Le-Graverand, PhD candidate, INRAE Toulouse, Dec 2022.
- Pedro Salguero García, PhD candidate, Polytechnical University of Valencia, Dec 2022.
- Attila Csala, PhD candidate, University of Amsterdam, Nov 2019 – March 2020.
- Prof Malu Calle Rosingana, University of Catalunya, January 2019.
- Stijn Hawinkel, PhD candidate, Ghent University, March – May 2019.
Latest News
Upcoming events
Click on each event for more information. If you'd like to subscribe to our mailing list to learn about future events, please email the MIG administrator at MIG-EA@unimelb.edu.au.
Past events
Click on each event for more information.
We create and distribute software and IT tools for the computational biology research community
-
Metaphor
-
NanoSplicer
-
BLAZE
-
KIR*IMP
The KIR*IMP method will allow you to impute various KIR types using your data, including KIR gene copy number, KIR A or B haplotype and gene-content haplotypes.
-
LDAK
Fast computation of LD-Adjusted SNP weights and Kinship matrices for genome-wide mixed-model analysis. Includes a generalised REML Solver and efficient gene-based association testing.
-
likeLTD
likeLTD is an R package for computing likelihoods for DNA profile evidence, including complex mixtures and when profiles are subject to dropout.
-
mixOmics
mixOmics is an R toolkit for the multivariate analysis of biological data, with a specific focus on ‘omics data integration and variable selection.
-
multiBLUP
The best genomic predictor we can find, for individual genotype data and both binary and quantitative traits. Generalises the classical BLUP approach and largely retains its computational efficiency.
-
mvBIMBAM
BIMBAM for genetic association analysis of multiple related phenotypes.
-
WaveQTL
Wavelet-based genetic association analysis of functional phenotypes arising from high-throughput sequencing assays.
-
MTR-Viewer
The Missense Tolerance Ratio measures the purifying selection acting on missense variants. Interactive plots and downloads available for 18,000+ genes.
-
rater
'rater' is an R package for fitting and interrogating statistical models of repeated categorical rating data.
Genomic Databases Resource Hub
Melbourne Integrative Genomic’s I.T. blog (COGENT) is a genomic resource hub used to store tutorials, information about genomic databases and contact information that is regularly used by our group and collaborators. COGENT contains video recordings of our fortnightly computational tutorials and in-depth background on major genomic datasets available online, managed by Bobbie Shaban (Genomic Data Specialist, MIG).
An introduction to statistics for statistical genetics
A series of online lectures from world leading experts in statistical genetics. Follow the link below for an overview of the talks, for full access UniMelb members can login via the Library Catalogue (search for Henry Stewart Talks).
Location
Melbourne Integrative Genomics (MIG) is located on Royal Parade at the University of Melbourne’s main Parkville campus (Building 184), a 20 minute walk or short tram ride (Route 19, Stop no. 11) from the city centre.
Mailing address
Melbourne Integrative Genomics
Building 184, Royal Parade
University of Melbourne
Parkville 3010, Victoria, Australia
Directions
Google map pin (front entrance): https://goo.gl/maps/te888rSFeyc6LqgV6
There is a phone in the reception area, with contact numbers to call us.
Contacts
| Michael Stumpf (Director) | Phone: | Email: mstumpf@unimelb.edu.au |
| Jenny Santaannop (Administrator) | Phone: 8344 7126 | Email: mig-ea@unimelb.edu.au |
MIG Entrance on Royal Parade
