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Australia now BioSharing through agreement finalised this week

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From this week Australian researchers are able to contribute their materials to this portal and to get access to its store, thanks to an agreement between BioSharing and EMBL-ABR. Such access will enable further dissemination of shared data standards for researchers around the world. BioSharing is a web-based, searchable portal of three interlinked registries, containing both

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EMBL-ABR: an interview with Jenny Martin

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This week’s interview is with high-achieving Professor Jenny Martin, Director, Eskitis Institute, Griffith University in Australia. We are extremely pleased to announce that Jenny has agreed to join our International Science Advisory Group.  Jenny’s comments on data and publishing models confirm some strong themes coming through from the research community in these interviews. We welcome what

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GOBLET / EMBL-ABR agreement to build international alliances

With a collaborative agreement being formalised this week between EMBL-ABR and the Global Organisation for Bioinformatics Learning, Education and Training (GOBLET), we are very pleased to have Professor Teresa Attwood, founder, and current Chair of GOBLET, musing on current trends and needs in bioinformatics. Her vision for EMBL-ABR?  To see it become the go-to Hub for Australian bioinformatics,

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EMBL-ABR: an interview with Suzanna Lewis

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This week’s interviewee Suzanna Lewis proposes nothing less than a revolution in research publishing orthodoxy where you get credit for the fact that someone can easily find and re-incorporate or integrate your information and where then the task of data curators moves from tidying up data to reviewing and synthesising it. Read more.

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2016 Interview series: reflecting on bioinformatics

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Over the past few months we have contacted Australian and international expert bioinformaticans and asked them the same six questions. The variety of their responses reflects the diversity of our community and the challenges we face. Take some time to read them here: Professor Mark Ragan, Queensland, Australia Professor Marc Wilkins, News South Wales, Australia Dr

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Welcome to the data commons

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On June 7 HealthcareITNews led with the headline, Joe Biden unveils precision medicine database at University of Chicago. The report documents how a new Genomic Data Commons is pulling data from US National Cancer Institute programs of over two petabytes of cancer genomic datasets, making it accessible to a wider research community. EMBL-ABR’s interest is

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EMBL-ABR: an interview with Frederik Coppens

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Philippa Griffin, our Open Data Coordinator, has been at Indiana University, Bloomington, Indiana, USA, as one of a team of instructors at the Galaxy Community Conference 2016. While there she had the opportunity to interview some leading practitioners from our global network of bioinformaticians. For this week’s interview she spoke with Frederik Coppens from Belgium.

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EMBL-ABR network: an interview with Allegra Via

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Trained as a theoretical physicist, Allegra Via was lured by the beauty of proteins into the life sciences, and using her unique skills, gravitated towards bioinformatics. She regularly teaches Bioinformatics and Python Programming Language to bioinformaticians and biologists and in 2010 she created the “Bioinformatics using Python for Biologists” course for the Gulbenkian Training Programme

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EMBL-ABR network: an interview with Rafael Jimenez

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This week we hear from Rafael Jimenez, who is working at the coalface of life science data infrastructure as Chief Technical Officer, ELIXIR Hub, based in the UK. Rafael sees the need for faster adaptation to this big data era where we need to find new ways to fund, sustain and continue to develop the many useful

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EMBL-ABR network: an interview with Pedro Fernandes

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In this week’s interview, we have a perspective from Portugal, but it could be from anywhere in the world. When asked what is missing in bioinformatics AND life sciences, Pedro Fernandes lists three things: 1. a better balance between formal and continuous non-formal education 2. lowering of barriers to access data and computational resources 3. greater standardisation

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EMBL-ABR network: an interview with Nathan Watson-Haigh

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In a multi-disciplinary field such as bioinformatics, it is not possible to be an expert in everything. We bioinformaticians cannot expect life scientists to leave the lab behind completely to gain expertise in bioinformatics. Similarly, bioinformaticians cannot be expert biologists, computer scientists, software developers etc. It takes a team of bioinformatics, each with expertise in

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EMBL-ABR network: an interview with John Hancock

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Asked recently for his views on the current state of bioinformatics, the Head of the ELIXIR UK Node based at The Genome Analysis Centre in Norwich, Dr John Hancock, highlighted open data as an essential pre-requisite for modern bioscience and that it is definitely not something to be afraid of. Read more.

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EMBL-ABR network: an interview with Jason Williams

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The US National Cyberinfrastructure for Life Science (CyVerse) is a US National Science Foundation funded project supporting a community of more than 30,000 users at every level of bioinformatics experience (from little-to-no bioinformatics training to power user). As Education, Outreach and Training lead for CyVerse, Jason Williams spends a lot of time teaching wet-lab biologists to become

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EMBL-ABR network: an interview with Jac Charlesworth

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Tasmania has a small but vibrant bioinformatics community and one of its very active members is Dr Jac Charlesworth, who runs a computational genomics research group at the Menzies Institute for Medical Research at UTAS. She also manages the computational infrastructure for genomics research at Menzies, and provides bioinformatics training and support. Asked what she wants

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EMBL-ABR network: an interview with Marc Wilkins

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Another key person in bioinformatics in Australia who our Deputy Director Assoc Prof Vicky Schneider met with on her recent trip to three States was Prof Marc Wilkins in New South Wales. Marc wants EMBL-ABR to raise the profile of bioinformatics in Australia, to help coordinate and facilitate activities and to share know-how. The more support we can

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April 2016 news update

It has been a busy few months here in the EMBL-ABR Hub. Dr Jason Williams came to Melbourne to present a workshop on CyVerse, and to discuss possible routes for collaborations, including a federated model of CyVerse for Australia. Full schedule and details of Jason’s CyVerse workshop. Earlier in the month Deputy Director Vicky Schneider visited three Australian

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EMBL-ABR International Science Advisory Group

EMBL-ABR International Science Advisory Group brings together a number of highly-regarded scientists from around the world, to discuss and advise on EMBL-ABR strategy, activities and priorities. Read more.

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EMBL-ABR Network: an interview with Mark Ragan

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On her recent visit to meet key bioinformaticians around the country, our Deputy Director Assoc Prof Vicky Schneider was keen to ask people what they thought some of the collective actions EMBL-ABR could take to support bioinformatics in Australia. In Queensland, Prof Mark Ragan said he wants to see biology mature as a data science through a

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Why big data is a big deal

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extract from “Why Big data is a big deal” featuring EMBL-ABR Director Andrew Lonie and Deputy Director Vicky Schneider “…University of Melbourne Associate Professor Vicky Schneider is the new deputy director of theEMBL Australia Bioinformatics Resource (EMBL-ABR) hosted at the Victorian Life Sciences Computation Initiative (VLSCI) and is part of this big data revolution in

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Intensive training in Cancer Genomics and the Genome Analysis Tool Kit in Melbourne

Two of the latest instalments of Bioplatforms Australia training workshops have been held in Melbourne and Sydney in February. The GATK Best Practice course brought the Broad Institute’s Geraldine van der Auwera to the University of New South Wales and the University of Melbourne. A new 3-day Cancer Genomics workshop was run in the Melbourne

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