Schedule and Program
Theme for each day:
The programme for each day is devoted to a topic, where both
educational and research presentations will be delivered.
Monday is devoted to provision of background knowledge in biology
and computing, with biology lectures in the morning and computing
lecture and practical session, of the language Python, in the afternoon.
The themes for Tuesday to Friday are: Sequence to Structure, Comparative
Genomics, Analysis of Gene Expressions and Regulatory Networks.
Mornings:
The morning
session of each day will start with background lectures, which will
target students but also be applicable to academics moving into
bioinformatics, and those who wish to learn about other areas of
bioinformatics. Presentations of contributed papers will follow
after morning tea, except for Monday when a biology lecture will
be delivered.
Afternoons:
The first talk of each afternoon will be a keynote speaker.
To follow are two parallel sessions, of contributed presentations
and computer laboratory practicals. The computer practical sessions
have limited placed, and priority is given to participants enrolled in
the Graduate Award Certificate course.
|
MONDAY |
TUESDAY |
WEDNESDAY |
THURSDAY |
FRIDAY |
|
BIOLOGY |
SEQUENCE TO
STRUCTURE |
COMPARATIVE GENOMICS |
ANALYSIS OF
GENE EXPRESSIONS |
REGULATORY
NETWORKS |
9 - 10 AM
Lectures |
Registration |
Bill Pearson |
Ziheng Yang |
Geoff McLachlan |
Hilary Booth |
| 10 - 11 AM Lectures |
Gavin Huttley |
Michael Wise |
Allen Rodrigo |
Conrad Burden |
Michael Wise |
| 11-11:30 AM |
Morning tea |
| 11:30AM - 12:30PM |
Matthew Wakefield |
Michael Towsey
Saravanan Dayalan
Abdullah Al Amin |
Cheong-Xin Chan
Brett Easton
Jim Bashford |
Geoff McLachlan
(Keynote) |
Ian Dodd
Keith Shearwin
(Keynote) |
| 12:30-1:30 PM |
Lunch |
| 1:30 - 2:30 PM |
Warren Kaplan
(Keynote) |
Bill Pearson
(Keynote) |
Ziheng Yang
(Keynote) |
John Maindonald
Byung Soo Kim
Mik Black |
Terry Speed
(Keynote) |
| 2:30 - 3:30 P.M. |
Peter Maxwell |
Maia Sauren
Peter Wood
Alex Garcia |
Romeo Rizzi |
Alice Oshlack
Pablo Moscato |
Jennifer Hallinan
Bruno Gaeta |
2:30 - 6 P.M.
Computer Lab |
4 - 6 PM
Python Lab |
Protein lab |
Py-evolve lab |
R lab |
Python
Bionet Lab |
| 3:30 - 4 PM |
Afternoon Tea |
| 4 - 5 PM |
|
|
|
|
|
| 5 - 6 PM |
|
Welcome drinks |
|
|
|
| 6 - 7 PM |
|
Public Lecture - Rob Saint |
|
|
|
Venue
All talks will take place in the Manning Clark Centre, ANU (Bldg
26a, ref g3 on the ANU map).
Titles of presentations
Monday 6/12/2004
| 10 - 11 AM |
Introduction to Biology |
Gavin Huttley |
| 11:30AM - 12:30PM |
Molecular Biology Tools and Techniques |
Matthew Wakefield |
| 1:30 - 2:30 PM |
An Introduction to Protein Structure and Function |
Warren Kaplan |
| 2:30 - 3:30 PM |
Introduction to Python |
Peter Maxwell |
Tuesday 7/12/2004
| 9-10 AM |
Looking at Protein Sequences - How far back can we see? |
Bill Pearson |
| 10-11 AM |
Difficult Proteins |
Michael Wise |
| 11:30-11:50AM |
Alternative sequence representations when using position weight
matrices
to detect protein binding sites in DNA |
Michael Towsey |
| 11:50AM-12:10PM |
A homology based dihedral angle database for protein structure prediction |
Saravanan Dayalan |
| 12:10-12:30PM |
Almost Perfect Match Algorithm : an approach to predict the
backbone
structure of a protein using the Context Sensitivity of Dihedral
Angles |
Abdullah Al Amin |
|
1:30-2:30 PM |
From Sequences to Science New Perspectives on Protein
Sequences
and Structures |
Bill Pearson |
| 2:30-2:50 PM |
RRM Analysis Of Platelet Aggregation Activation Inhibitors |
Maia Sauren |
| 2:50-3:10 PM |
Using wavelets and support vector machines to classify proteomic data |
Peter Wood |
| 3:10-3:30 PM |
From Genotype to Phenotype: modeling knowledge in Functional Plant Genomics |
Alex Garcia |
Wednesday 8/12/2004
| 9-10 AM |
Markov chain Monte Carlo methods in genetics |
Ziheng Yang |
| 10-11 AM |
The Evolutionary Genetics of Measurably Evolving Populations |
Allen Rodrigo |
| 11:30-11:50AM |
Detection and analysis of genetic transfers |
Cheong-Xin Chan |
| 11:50AM-12:10PM |
Evolutionary modelling of dependence through non-reversible
Markov models |
Brett Easton |
| 12:10-12:30 PM |
On the possibility of identifying regulatory sites by physics-based
methods |
Jim Bashford |
| 1:30-2:30 PM |
Detecting adaptive protein evolution |
Ziheng Yang |
| 2:30-3:30 PM |
Haplotyping Populations by Pure Parsimony |
Romeo Rizzi |
Thursday 9/12/2004
| 9-10 AM |
Some Statistical Issues in Analyzing Gene Expression |
Geoff McLachlan |
| 10-11 AM |
Adsorption Models of Oligonucleotide Microarrays |
Conrad Burden |
| 11:30AM-12:30PM |
The Classification of Microarray Data |
Geoff McLachlan |
| 1:30-1:50 PM |
Graphs of Samples of Microarray Data, Designed to Show Known Prior
Groupings |
John Maindonald |
| 1:50-2:10 PM |
Developing a Molecular Prognostic Indicator of a Cancer Based on a
Small Sample |
Byung Soo Kim |
| 2:10-2:30 PM |
Empirical false discovery rate control, with application to
microarray experimentation |
Mik Black |
| 2:30-2:50 PM |
Disentangling the Effects of Sequence Mismatch and Expression
Levels in Species-specific
cDNA Arrays |
Alice Oshlack |
| 2:50-3:10 PM |
Finding genes and predicting presidents: applications of alpha-beta
feature sets |
Pablo Moscato |
Friday 10/12/2004
| 9-10 AM |
Modelling Gene Regulation using the Stochastic Master Equation |
Hilary Booth |
| 10-11 AM |
A Discrete-Event Simulator of Metabolic Networks -
Bottom Up Systems Biology |
Michael Wise |
| 11:30AM-12:30PM |
Bacterial viruses and modelling gene regulatory networks
Measuring parameters in bacteriophage gene regulation |
Ian Dodd
Keith Shearwin |
| 1:30-2:30 PM |
SA-dependent pathways and networks of Arabidopsis thaliana
in response to infection with powdery mildew |
Terry Speed |
| 2:30-2:50 PM |
Using real data in models of genetic regulatory networks:
potentials and pitfalls |
Jennifer Hallinan |
| 2:50-3:10 PM |
Beyond "omics": predictive and simulation frameworks for systems
biology |
Bruno Gaeta |
Posters
| 1. |
An Iterative Approach to the Longest Common Subsequence Problem |
Hilary Booth |
| 2. |
Visualization and Analysis of Metabolic Pathways |
Tim Conrad |
| 3. |
Matrioshka Gene Subset for the Molecular Characterization of
Cancer |
Wagner Costa |
| 4. |
EST and microarray analyses - the complexity of Cnidarian genomes
and the implications for metazoan evolution |
Lauretta Grasso |
5. |
Microarray-based study of stress responses in plant mitochondria:
new approaches to identifying co-expressed gene clusters and potential
regulatory elements |
Kat Holt |
| 6. |
Discovering shared information from DNA sequences and documents: a
graph drawing approach |
Mario Inostroza-Ponta |
| 7. |
A New Method for Protein Folding Problem |
Junmei Jing |
| 8. |
Modelling Gene Regulatory Networks |
Shev Mac |
| 9. |
Cross platform comparison of paediatric Acute Lymphoblastic
Leukaemia cDNA and Affymetrix microarray data |
Maree O'Sullivan |
| 10. |
The GE-Biplot: A Visualization Tool for Microarray Data |
Yvonne Pittelkow |
| 11. |
XML based query for semantic genome information retrieval |
Fahim Sufi |
| 12. |
Vestige: Maximum Likelihood based Phylogenetic Footprinting |
Matthew Wakefield |
| 13. |
Statistical methods for comparative mapping |
Ian Wood |
|
