PROGRAM

Download program here.

Venue:
Auditorium, Queensland Bioscience Precinct (Building # 80)
The University of Queensland, St Lucia Campus

Monday 6 July 2015

08:00 Registration desk open.

NEXT GENERATION SEQUENCING & BIOINFORMATICS
09:00 – 09:05 Welcome and introduction
Dr Nicholas Hamilton
Research Computing Centre and Institute for Molecular Bioscience
The University of Queensland

09:05 – 09:45 Next-generation sequencing: an overview of technologies
and applications

Dr Ken McGrath
Australian Genome Research Facility Ltd (AGRF)
Brisbane
Biography    Abstract

09:45 – 10:30 Defensive NGS informatics – what can go wrong and how do you know
when to throw in the towel?
Mr John Pearson
QIMR Berghofer Medical Research Institute
Biography     Abstract

10:30 – 11:00 Morning Tea

11:00 – 11:30 NGS mapping errors and quality control
Dr Felicity Newell
The University of Queensland Diamantina Institute
Biography     Abstract

11:30 – 12:00 Mutation detection in whole genome sequencing
Dr Ann-Marie Patch
QIMR Berghofer Medical Research Institute
Biography     Abstract

12:00 – 12:30 Evaluation of mutation detection
Dr Adam Ewing
Mater Research Institute
The University of Queensland
Biography     Abstract

12:30 – 13:30 Lunch

13:30 – 14:00 Introduction to RNA-seq
Dr Paul Gardner
University of Canterbury, New Zealand
Biography     Abstract     Presentation

14:00 – 14:30 Analysing RNA-seq data: differential expression and beyond
Dr Alicia Oshlack
Murdoch Childrens Research Institute, Melbourne
Biography     Abstract

14:30 – 15:00 Obstacles and challenges in the analysis of microRNA sequencing data
Dr David Humphreys
Victor Chang Cardiac Research Institute
St Vincents Hospital, Sydney
Biography     Abstract     Presentation

15:00 – 15:30 Afternoon tea

15:30 – 16:00 Genomic infrastructure for NGS
A/Professor Mik Black
Department of Biochemistry
University of Otago, New Zealand
Biography     Abstract     Presentation

16:00 – 16:30 Cancer genomics and clinical applications
Dr Nic Waddell
QIMR Berghofer Medical Research Institute
Biography     Abstract     Presentation

16:30 – 17:00 Clinical applications of NGS, the Human Variome Project and data sharing
Professor Graham Taylor
Victorian Clinical Genetics Services
Murdoch Childrens Research Institute
Biography     Abstract     Presentation

17:30 till late   Social BBQ

Tuesday 7 July 2015
NEXT GENERATION SEQUENCING & BIOINFORMATICS
09:00 – 09:30 De novo genome assembly
A/Professor Torsten Seemann
Victorian Life Sciences Computation Initiative
The University of Melbourne
Biography     Abstract

09:30 – 10:00 Understanding microbes through the lens of comparative genomics
A/Professor Aaron Darling
Faculty of Science
University of Technology, Sydney
Biography     Abstract     Presentation

10:00 – 10:30 Metagenomics 101
A/Professor Gene Tyson
Australian Centre for Ecogenomics &
Advanced Water Management Centre
The University of Queensland
Biography   Abstract

10:30 – 11:00 Morning Tea

BIOLOGICAL INFERENCE FROM SEQUENCE DATA
11:00 – 11:45 Population genetics using next-generation sequencing data
Dr Lachlan Coin
Institute for Molecular Bioscience
The University of Queensland
Biography     Abstract

11:45 – 12:30 Genomics analysis in real-time with Nanopore sequencing
Dr Minh Duc Cao
Institute for Molecular Bioscience
The University of Queensland
Biography     Abstract     Presentation

12:30 – 13:30 Lunch

13:30 – 14:30 Rare regulatory variation in individuals, families and populations
Assistant Professor Stephen Montgomery
Department of Pathology
Stanford University, USA
Biography     Abstract

14:30 – 15:30 Towards large scale integration of sequencing data
Dr Timo Lassmann
Computational Biology
Telethon Kids Institute, Perth
Biography     Abstract     Presentation

15:30 – 16:00 Afternoon Tea

16:00 – 17:00 Crop bioinformatics – fertile ground for challenges and opportunities
to understand complex genomes
Dr Jen Taylor
CSIRO Plant Industry
Biography     Abstract

17:00 – 17:15 Resource talk: How QCIF enables research
Ms Belinda Weaver
QCIF e-Research Analyst Team Manager

Wednesday 8 July 2015
BIOLOGICAL INFERENCE FROM SEQUENCE DATA
09:00 – 09:45 Using whole genome sequencing to map mutations from mutagenic
screens in zebrafish

Dr Gregory Baillie
Institute for Molecular Bioscience
The University of Queensland
Biography     Abstract     Presentation

09:45 – 10:30 Genetic and environmental control of DNA methylation
Professor Grant Montgomery
QIMR Berghofer Medical Research Institute
Biography     Abstract

10:30 – 11:00 Morning Tea

11:00 – 12:00 Visualising the future of bioinformatics
Dr Seán O’Donoghue
Office of the Chief Executive (OCE) Science Leader
CSIRO, Sydney
Biography     Abstract

12:00 – 12:30 Panel discussion

*** FREE WEDNESDAY AFTERNOON ***

12:30 – 13:00 IMB tour
(Limited to 50 attendees only. If more requests are received,
a second tour will be scheduled for 1:00 p.m.)

SPECIAL WEDNESDAY AFTERNOON WORKSHOP
(This workshop is limited to 36 attendees only and is intended for bench scientists, and no previous informatics experience is needed.)

14:00 – 17:00 An introduction to Galaxy with the NeCTAR Genomics Virtual Laboratory
Dr Mark Crowe, QFAB Bioinformatics
Biography     Abstract

Venue: Multi Media Room (Room 3.141, access through the auditorium foyer)
What is required before attending the workshop?
Download: Galaxy Workshop Information Sheet

Thursday 9 July 2015
BIG DATA, STATISTICS AND APPLICATIONS
09:00 – 10:30 Big data in health care and biomedical research
Professor John Quackenbush
Dana-Farber Cancer Institute & Harvard School of Public Health, USA
Biography     Abstract

10:30 – 11:00 Morning Tea

11:00 – 11:45 High performance computing for the biological sciences
Professor David Abramson
Research Computing Centre, The University of Queensland
Biography     Abstract

11:45 – 12:30 Biological data privacy and confidentiality
Dr Christine O’Keefe
CSIRO Digital Productivity Flagship, Canberra
Biogrqaphy    
Abstract

12:30 – 13:30 Lunch

13:30 – 14:00 A web-based personal assistant for designing statistically
sound experiments

Dr Kathy Ruggiero
Department of Statistics
The University of Auckland, New Zealand
Biography     Abstract      Presentation

14:00 – 15:00 Statistical experiment design – basic principles for biological studies
Dr Alec Zwart
CSIRO Computational Informatics, Canberra
Biography     Abstract      Presentation

15:00 – 15:30 Afternoon tea

15:30 – 16:15 Analysing correlated time-course data
Dr Kathy Ruggiero
Department of Statistics
The University of Auckland, New Zealand
Biography     Abstract     Presentation

16:15 – 17:00 Introduction to multivariate statistics for highly dimensional data
Dr Kim-Anh Lê Cao
The University of Queensland Diamantina Institute
Biography     Abstract     Presentation

Friday 10 July 2015
K-MERS: THE ENGINE OF BIOINFORMATICS
09:00 – 09:05 Welcome
A/Professor Jim Hogan
Electrical Engineering and Computer Science
Queensland University of Technology

09:0509:30 k-mers: introduction and similarity metrics
Professor Mark Ragan
Institute for Molecular Bioscience and
ARC Centre of Excellence in Bioinformatics
The University of Queensland
Biography     Abstract

09:30 – 10:15 The distribution of the D2 statistic and its close relatives: A review
Dr Conrad Burden
Mathematical Sciences Institute
The Australian National University
Biography     Abstract      Presentation

10:15 – 10:40 Morning Tea

10:40 – 11:15 Blue: correcting sequencing errors using k-mers
Mr Paul Greenfield
CSIRO Oceans and Atmosphere Flagship, Sydney
Biography     Abstract      Presentation

11:15 – 11:50 K-mers in genome assembly
Dr Benjamin Woodcroft
Australian Centre for Ecogenomics
The University of Queensland
Biography      Abstract     Presentation

12:00 – 13:00 IMB Friday Noon Seminar in conjunction with
Winter School (not k-mers)
Immune regulation of tissue regeneration
Professor Nadia Rosenthal
Australian Regenerative Medicine Institute, Monash University
Biography     Abstract

13:00 – 13:45 Lunch

13:45 – 14:20 Cancer telomeres – looking for k-mers
Mr John Pearson
QIMR Berghofer Medical Research Institute
Biography     Abstract

14:20 – 14:55 K-mers in metagenomics
Dr Donovan Parks
School of Chemistry & Molecular Biosciences
The University of Queensland
Biography     Abstract     Presentation

14:55 – 15:30 K-mers in phylogenetic inference
Dr Cheong Xin Chan
Institute for Molecular Bioscience
The University of Queensland
Biography     Abstract

15:30 – 15:40 Winter School wrap-up

~*~*~*~*~*~