bioinformatics xin-yi chua peter ansell, chris bowles, lawrence buckingham, james m. hogan, scott...
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Bioinformatics
Xin-Yi Chua
Peter Ansell, Chris Bowles,
Lawrence Buckingham, James M. Hogan,
Scott Mann, Paul Roe,
Jiro Sumitomo, Jan M. Weinert
www.mquter.qut.edu.au/bio
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Bioinformatics
Another Genomic Revolution
Bio 2.0: Navigate and Share the graph
Bringing ‘GIS’ to Comparative Genomics
Future Directions
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Bioinformatics
An explosion in genomic data
The rise of population genomics & proteomics
Alignment does not scale to the new BioScience
Comparative genomics
Gene regulation
Protein characterisation
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Bioinformatics 04/21/23 4
BLASTBLAST
3e-56
5e-56
9e -45
9.9
…
Results “Hits”
Reference gene
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Example ClustalW alignment
mammalian sulfatases: first 110 residues of the catalytic domain
Bioinformatics
We allow scientists to visualise the graphMake the topology fit the question
Visualisation is navigation
Let the graph answer the question Refine and test hypotheses
And then make the answer available Peer communities & link-based publication
Sharing the vision…
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Bioinformatics
The new ‘GIS’ – Genomic Information System
All about distances and what works for the user
Linking to data sources via Bio2RDF
Combining a collection of data sources together
Exploiting tags and ontologies
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SilverMap Blast component
Bio2RDF Bio2RDFBio2RDF
BlastDBBlastDB
TagsTags
TRN
Protein-protein interactions
User defined distance measures
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Bioinformatics
Future applicationsSupport user defined distances
Transcriptional Regulatory Network analyses
Protein-Protein interactions
Bringing our tools to the communityMaking SilverMap the lingua franca of genomic publication
The lab wiki and public web site
Integration, tagging and sharing of views
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