embl australia bioinformatics resource bioinfosummer 2016

A/Prof Vicky Schneider Deputy DirectorA/Prof Andrew Lonie DirectorDr Philippa Griffin Open Data Coordinator

What is research infrastructure?

• Buildings, administration, library resources, electricity, internet, equipment…

Pro rata contributions from ARC and NHMRC

What is research infrastructure?

From tern.org.au, imos.org.au, plantphenomics.org.au

• Facilities• Specialised

equipment

What is research infrastructure?

• Facilities• Access, support and

expertise

By Natasha Hurley-Walker (Own work) [CC BY-SA 3.0 (http://creativecommons.org/licenses/by-sa/3.0)], via Wikimedia Commons

What is research infrastructure?

• Data management, storage, repositories and tools

*http://www.nature.com/nature/journal/v498/n7453/pdf/498255a.pdf

Data infrastructure in the ‘omic era

What is research infrastructure?

AstronomyPhysicsAdvanced ManufacturingEarth ScienceMarine Science

Life and Medical Sciences• Terrestrial Ecology Research Network• Australian Phenomics Network• Australian Plant Phenomics Facility• Population Health Research Network• Translating Health Discovery• Australian Animal Health Laboratory• Bioplatforms Australia• EMBL Australia

Multi-Domain, e.g.• Microscopy facilities• Australian National Data Service• High-Performance Computing Facilities

What is research infrastructure?

AstronomyPhysicsAdvanced ManufacturingEarth SciencesMarine Science

Life and Medical Sciences• Terrestrial Ecology Research Network• Australian Phenomics Network• Australian Plant Phenomics Facility• Population Health Research Network• Translating Health Discovery• Australian Animal Health Laboratory• Bioplatforms Australia• EMBL Australia

Multi-Domain, e.g.• Microscopy facilities• Australian National Data Service• High-Performance Computing Facilities• NECTAR

Bioinformatics-related infrastructure

The Tyranny of Distance

AARnet International Network – Sept 2016

2010: EBI Mirror project

Making research tools and data accessible in Australia

Making research tools and data accessible in Australia

2010: EBI Mirror project

EBI projection of infrastructure requirements 2015

Scalability?

EMBL Australia Bioinformatics Resource (BRAEMBL)

Mission:

1. Ensure we have access to the tools and data we need to be globally competitive

2. Showcase Australian life science research

3. Advise, support and train

BRAEMBL EMBL-ABR• started in its current

form in Feb 2016

• hub hosted at VLSCI, University of Melbourne

• 10 nodes at the institution/organisation level across Australia

• NCRIS funding via Bioplatforms Australia, matched by University of Melbourne

• 2011-2014

• based in Brisbane

• NCRIS funding via Bioplatforms Australia; UQ, Qld State Govt

Why do we need EMBL-ABR?

• Tools, platforms and methods• Best-practice development • Long-term maintenance• Discoverability• Adopting tools/platforms that already exist elsewhere

• Data• Data management for complex biological datasets• FAIR data and resources• Australian data, flagship projects

• Training• Scalability and accessibility• Global perspective

• Standards • Direct participation in international consortia• Ensuring AU needs are considered

• Compute Resources• Making the most of existing “hard” infrastructure

Key Areas

EMBL-ABR is the vehicle for the Australian Bioinformatics community to actively participate in world’s best practice bioinformatics, positioning our institutions at the forefront with international

partners. Cyverse, ELIXIR, BD2K.

National bioinformatics infrastructure?

• fosters excellence in data science to support progress in biological research and health

• bioinformatics infrastructure

• resources• expertise• services

• federating world-class researchers

• delivering training in bioinformatics

• provides first-class services to users in life sciences research, industry and medicine

• coordinates bioinformatics training and education

• coordinates cooperation of the German bioinformatics community with international bioinformatics network structures

European Life Sciences Infrastructure for Biological Information

A rapidly evolving international context

EMBL Australian Bioinformatics Resource (EMBL-ABR) is a distributed national

research infrastructure providing bioinformatics support to life science

researchers in Australia.

EMBL-ABR aims to:

1. increase Australia’s capacity to collect, integrate, analyse, exploit, share and archive the large heterogeneous data sets now part of modern life sciences research.

2. contribute to the development of and provide training in data, tools and platforms to enable Australia’s life science researchers to undertake research in the age of big data.

3. showcase Australian research and datasets at an international level.

4. enable engagement in international programs that create, deploy and develop best practice approaches to data management, software tools and methods, computational platforms and bioinformatics services.

1. Ensure Australia has access to

the tools and data we need to

be globally competitive2. Showcase Australian life science

research3. Advise, support and train

Scale and focus: analogous efforts

2016$0.4m

2015$2.9m + $8.7m

2016-2020

~$6m/yr

About EMBL-ABR

Heads of Nodes  

Marc WilkinsJac Charlesworth

Sylvain Forêt

Ira Cooke

Sonika TyagiAndrew Lonie

Malcolm McConville Dave Edwards

Steve Androulakis Rob Cook

About EMBL-ABR

Heads of Nodes

+Executive

Marc WilkinsJac Charlesworth

Sylvain Forêt

Ira Cooke

Sonika TyagiAndrew Lonie

Malcolm McConville Dave Edwards

Steve Androulakis Rob Cook

Paul FlicekLead, Vertebrate

Genomics & ENSEMBL

Jaap HeringaHead, ELIXIR-NL

Vivien BonazziSenior Advisor Data Science

Tech & Innovation

Jason WilliamsEducation,

Outreach and Training Lead

Andrew YoungDirector, National

Research Collections Australia, ACT

Mark WalkerDirector, Aust Infectious Disease Res Centre, UQ

Delphine FleuryAus Centre for Plant Functional Genomics,

SASean Grimmond

Director, Centre for UoM Cancer Research, VIC

Rebecca JohnsonDirector, Australian Museum Research

Institute, NSWJenny MartinCo-Director,

Breakthrough Science Program, Centre for

Superbug Solutions, UQ

International Scientific Advisory Group

https://www.embl-abr.org.au/key-documents/

Key Areas

EMBL-ABR is the vehicle for the Australian Bioinformatics community to actively participate in world’s best practice bioinformatics, positioning our institutions at the forefront with international

partners. Cyverse, ELIXIR, BD2K.

Event Registry Registry of bioinformatics-related training eventsPowered by iAnn

Do your bioinformatics-related events appear here? If not, let us know:contact@embl-abr.org.au

embl-abr.org.au/events

Do your open training materials appear here? If not, let us know and we will add the source:contact@embl-abr.org.au

STM.embl-abr.org.au

  ToolsAUCatalogue of Australian bioinformatics toolsHarvested from ELIXIR bio.toolsDo your tools appear here? If not, add them to bio.tools or email us:contact@embl-abr.org.au

embl-abr.org.au/tools/toolsau/

• EMBL-ABR Node involvement in BPA flagship projects

• Antibiotic-Resistant Pathogens• Oz Mammals

Talk to us!

www.embl-abr.org.au

@EMBL_ABRcontact@embl-abr.org.au

Key DocumentsMailing List signupSurvey

Acknowledgements

Madison Flannery

Developer

Simon GladmanResearch Scientist

Thank YOU www.embl-abr.org.au

@EMBL_ABR