Monday 26th June:
Professor Mark Borodovsky
Mark Borodovsky is Regents' Professor in the School of Biology at Georgia Institute of
Technology (USA) and founder of the biennial International Workshop on Bioinformatics in
Atlanta. His research focuses on computational analysis of genomic sequences for the
identification of functionally important features. Professor Borodovsky developed the highly
regarded GeneMark software for gene discovery.
Dr Tim Bailey
Tim Bailey is a Group Leader in genomics and computational biology at the Institute for
Molecular Bioscience at the University of Queensland, and an Investigator in the ARC Centre
in Bioinformatics. His web-based programs MEME (motif discovery), MAST (motif-based
search) and MetaMEME (motif discovery using HMMs) are used by more than 1000
researchers internationally each month. Tim's research interests include molecular
biological applications of machine learning, data mining and statistics.
Dr Paul Horton
Paul Horton is Research Fellow and a Group Leader in the sequence analysis team at the
Computational Biology Research Centre, National Institute of Advanced Industrial Science,
Japan. Paul's research interests include development of search and database-mining
software for gene expression profiles, analysis of promoters and gene expression, prediction
of the subcellular localisation or proteins, and construction of a data source for analysis of
cell type based on gene expression data.
Dr Martin Frith
Martin Frith is a Research Associate jointly at the Institute for Molecular Bioscience, and at
RIKEN Genomic Science Center, Japan. His research focuses on understanding, at the
nucleotide level, how genomes encode the information needed to build and maintain complex
organisms. He developed the GLAM (gapless alignment of multiple sequences) program for
discovery of functional motifs.
Tuesday 27th June:
Dr Regina Berretta
Regina Berretta is a Lecturer in the School of Electrical Engineering and Computer Science
at the University of Newcastle, and a member of the Newcastle Bioinformatics Initiative. Her
research interests include combinatorial optimisation modelling with applications in
bioinformatics, and development of metaheutistic methods including Tabu search and
memetic algorithms.
Dr Pablo Moscato
Pablo Moscato is Director of the Newcastle Bioinformatics Initiative (University of Newcastle,
Australia). His research interests include methods for combinatorial optimisation in
bioinformatics, exact and hybrid techniques for optimisation, mathematical modelling and
heuristics. His work in bioinformatics is primarily focused on mathematical models for mining
large-scale datasets, hierarchical clustering and phylogenetics, and analysis of gene-
expression data in neurodegenerative diseases and cancer.
Dr Tim Bailey
Mr Paul Taylor
Paul Taylor is a senior applications engineer at Mathworks Australia. Mathworks is the
leading global provider of software for technical computing and model-based design. Paul
will present a workshop on MATLAb, a powerful interactive matrix-based environment for
scientific and engineering modelling and computation. MATLAb has a large user base in
Australia and overseas, and extensions are available for a number of application domains
including bioinformatics.
Dr James J. Cai
James J. Cai is a Research Associate in the department of biological sciences at Stanford
University. He developed MATLAB-based programs MBEToolbox (for molecular evolution)
and PGEToolbox (for population genetics). His research interests include bioinformatics
relating to comparative and evolutionary genomics of fungi and other eukaryotes, and
statistical analysis of divergence and polymorphism of DNA sequence, aiming to identify
evolutionary patterns resulted from many evolutionary forces, such as natural selection,
genetic drift, mutation and migration.
Public lecture:
Dr Andrew Roger
Andrew Roger is an Associate Professor of Biochemistry and Molecular Biology at
Dalhousie University in Canada, and Scotiabank Fellow in the Evolutionary Biology Program
of the Canadian Institute for Advanced Research. His research interests include the origin
and diversification of eukaryotes, models of protein evolution, molecular phylogenetics
and comparative genomics. Andrew will present an open public talk on the early molecular
events in the evolution of eukaryotes, with emphasis on (and spectacular photos of)
free-living and parasitic unicellular forms.
Wednesday 28th June:
Professor Mike Hendy
Mike Hendy is Professor of mathematical biology at Massey University, and Director of the
Allen Wilson Centre for Molecular Biology and Evolution. His research focuses on the
mathematical modelling and phylogenetic analysis of biological sequence data, and
methods for comparison of graphs including chromatic polynomials. He introduced the
Hadamard conjugation (discrete Fourier transforms) to the analysis of DNA sequences.
Dr Barbara Holland
Barbara Holland is a Research Associate at the Allan Wilson Centre at Massey University,
NZ. Her current work involves the development of methods, such as consensus networks, to
display conflicting signals in phylogenetic data caused for example by hybridisation or lateral
genetic transfer. Barbara also investigates model specification and mis-specification in
phylogenetic inference.
Dr Michael Charleston
Mike Charleston is a Senior Lecturer in information technologies, and a member of the
Sydney University Biological Informatics and Technology Centre (SUBIT). His main area of
research is co-phylogeny, that is, the study of how groups of ecologically linked species
evolve with each other - for example, how parasites or pathogens continually evolve with
their hosts. Genes too can be considered to "parasitise" their "hosts" because they
undergo the same kinds of processes as do parasites and pathogens. Mike is also
interested in combinatorial optimisation, parallel search heuristics, phylogenetic inference
and molecular evolution.
Dr Charles Semple
Charles Semple is a Senior Lecturer in mathematics and statistics at University of
Canterbury, New Zealand. His research interests include discrete mathematics, matroids
(combinatorial geometries), and the mathematical foundations of modern phylogenetics.
Dr Alexei Drummond
Alexei Drummond is a Lecturer in bioinformatics in the Department of Computer Science
at the University of Auckland, a member of Bioinformatics Institute New Zealand, and a
principal in the bio-software company BioMatters Ltd. Alexei's research focuses on the
development of probabilistic models for understanding the evolution of genomes and viruses,
and their implementation in software.
Thursday 29th June:
Dr Sean Grimmond
Sean Grimmond is a Group Leader in genomics and computational at the Institute for
Molecular Bioscience at The University of Queensland, head of IMB's microarray facility,
and an Investigator in the ARC Centre in Bioinformatics. He is also active in the FANTOM
and US National Institutes of Health Stem Cell Anatomy networks. Sean's research
focuses on characterising the mammalian transcriptome to elucidate the genetic events that
underlie biological processes such as kidney and blood vessel development. His group
combines approaches based on bioinformatics, microarray technologies and functional
genomics to define specific phenotypes of lead genes.
Professor Terry Speed
Terry Speed is Professor of statistics at the University of California, Berkeley and Head
of Division of Bioinformatics at the Walter & Eliza Hall Institutes of Medical Research,
Melbourne. Terry splits his time roughly 50:50 between these two institutes. His research
covers many aspects of the application of statistics to genetics and molecular biology,
including biomolecular sequence analysis, mapping of genes in experimental crosses and
human pedigrees, and analysis of gene-expression data.
Dr Liat Ben-Tovim Jones
Liat Ben-Tovim Jones is a Research Associate in mathematics and in the Institute for
Molecular Bioscience at The University of Queensland, and in the ARC Centre in
Bioinformatics. Her research focuses on the analysis of gene-expression data from
Dr Toni Reverter
Dr Antonio (Toni) Reverter is Principal research scientist with the Bioinformatics Group
of CSIRO Livestock Industries. Toni's background is in statistical genetics, more
specifically in methods for large-scale genetic evaluation and parameter estimation. His work
in CSIRO involves the statistical analysis of gene-expression and mapping data including
whole-genome SNP genotypes for complex traits in livestock. More specifically, he develops
and applies novel mathematical, computational and statistical methods to disentangle the
the information encapsulated in datasets generated by high-throughput genomic techniques.
Toni was the recipient of the inaugural 2005 Eureka Prize for Bioinformatics.
Professor Kim-Anh Do
Kim-Ahh Do is Professor of biostatistics and applied mathematics at the University of
Texas, MD Anderson Cancer Center in Houston. Her research interests include
computational statistics and biostatistics, bioinformatics, statistical genetics and
nonparametric statistical methods, including the bootstrap.
Professor Geoff McLachlan
Geoff McLachlan is Professor of mathematics at The University of Queensland, Head of
UQ's Statistics Centre, and an Investigator in the ARC Centre in Bioinformatics. His
research interests include classification, cluster and discriminant analysis, and finite
models particularly as applied to microarray gene-expression data, as well as intelligent
systems, machine learning, pattern recognition and medical statistics.
Friday 30th June:
Professor David Abramson
Dave Abramson is Professor of computer science at Monash University. His research
interests are in the design of high-performance computer systems and of software
engineering tools for programming parallel distributed supercomputers. He is well-known
internationally for Grid software tools including GriddLeS, middleware for construction of
complex workflows on the Grid using legacy software components; Guard, a relative
debugger (relative debugging allows a user to compare data between two executing
programs); and Nimrod, middleware for distributed parametric modelling on the global Grid.
Professor Jane Hunter
Jane Hunter is Professor of information technology at The University of Queensland.
She is internationally recognised for work in the application of semantic web
technologies to the knowledge management and mining of large multimedia databases.
Her research focus is on the development of data models, ontologies, metadata standards,
schemas (RDF, XML), software tools and query languages to enable the indexing, archival,
discovery, analysis, integration, management and preservation of large mixed-media
collections within the educational, cultural and scientific domains, including the UK
Cancer Grid project. She is currently the liaison between MPEG (Moving Pictures Experts
Group) and W3C (World Wide Web Consortium), a member of the W3C Web Ontology
Language Working Group, and co-chair of APAN's (Asia Pacific Advanced Network)
eScience Working Group.
Professor Ah Chung Tsoi
Ah Chung Tsoi is foundation Director of the e-Research Centre at Monash University,
and Chair of the Management Board of the DART e-research project. Before joining Monash,
Ah Chung was Executive Director for Mathematics, Information and Communications
Sciences at the Australian Research Council, and was involved in establishing the national
e-research agenda. Prior to joining ARC, he was Dean of the Faculty of Informatics,
and foundation Pro-Vice Chancellor Information and Communication Technology at the
University of Wollongong.
Dr David Hansen
David Hansen is with the e-Health Research Centre, a joint venture between the
Queensland Government and CSIRO. Before returning to Australia, David was development
manager for the SRS bioinformatic data integration software at LION Bioscience (UK) for
more than five years. In addition to his unique knowledge of the SRS software, David is
highly experienced with genomic data sources, and with the major open and commercial
software packages and tools used to analyse these data. He manages the Health Data
Integration project at e-Health Research Centre.
Dr Tin Wee Tan
Tin Wee Tan is an Associate Professor of biochemistry at the Yong Loo Lin School
of Medicine, National University of Singapore. He was founding Director of NUS's
Bioinformatics Centre, the Singapore Advanced Research and Education Network,
founding signatory to the Asia Pacific Advanced Network, founding head of the Internet
Research and Development Unit, founder and retired chairman of Asia Pacific
Networking Group, past chairman of the ASEAN SubCommittee on Biotechnology, and
retired president of the Association of Medical and BioInformatics in Singapore.
He is actively promoting the ASEAN Science and Technology Research and Education
Network and Education Network Alliance, the S* Life Science Informatics Alliance,
the Asia Pacific Bioinformatics Network, Multilingual Internet Names Consortium,
and serves on the boards of the International Society for Computational Biology,
the International Conference on Bioinformatics, the International Life Science Grid
Workshop, and Keppel Telecommunications and Transportation Ltd. Tin Wee's research
interests include making the Internet deeply multilingual, developing disability resources
on the Internet, and building regional advanced research networks.



© ARC Centre in Bioinformatics 2006