Category Archives: open science

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Open Science: an interview with David Lynn

Category : interviews , open science

This month we are pleased to interview Assoc Prof David Lynn. Since 2014 David has been a European Molecular Biology Laboratory (EMBL) Australia Group Leader at the South Australian Health and Medical Research Institute (SAHMRI). He is also an Associate Professor at Flinders University School of Medicine. His group has built up considerable resources for research in immunology, and he is quick to acknowledge that the shared resources of others were essential to that. So Open Science is a concept he supports, but he says it needs appropriate incentives to work: “Right now, most assessment of scientific impact (e.g. for grants, promotion, etc) is based on the quantity and quality of publications. Researchers frequently do not formally cite the bioinformatics software they use. We need to ensure that high-quality, well-supported code, software and data are appreciated and considered when considering impact. We therefore need agreed metrics to do this and to weight them similarly to traditional citations. If done properly this will further incentivise, open, well-supported data and resources.”

Full interview.


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Open Science: an interview with Graham King

Category : interviews , open science

Today we are very pleased to be publishing our next Open Science interview conducted with Prof Graham King from Southern Cross University, head of our 12th EMBL-ABR Node. Graham’s interest in Open Science is in its potential for Australian scientists to showcase their science and draw attention to the knowledge generated here, especially in fields where Australia’s experience is based upon our unique flora and fauna and our challenging physical environment. “This will also give us access to knowledge generated elsewhere,” he says. “We need to work closely with CyVerse and Elixir… don’t re-invent the wheel or duplicate investment elsewhere….”

Full interview.


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Open Science: an interview with Saravanan Dayalan

Category : interviews , open science

Saravanan Dayalan is passionate about Open Science. He encourages young life science researchers to investigate how to expose and maximise their research to benefit their careers. And to the community overall, he says we need to learn from and adopt methods from the physicists, who have been successfully doing open science for decades now.

Full interview.


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Open Science: an interview with Jeff Christiansen

Category : interviews , open science

This month we are very pleased to publish an interview with Jeff Christiansen, Health and Life Sciences Program Manager, QCIF.  In early August Jeff will be taking over the role of Open Data Coordinator, EMBL-ABR whilst Pip Griffin takes some family leave. Jeff has loads of experience in the area of open data and some thoughtful insights into open science.

Jeff knows that the whole ecosystem of data, tools and compute that is used in research is very complex and spans not only national and local resources but also many international and also commercial resources. He believes it makes sense to resource national efforts to increase/improve local infrastructure and efforts to better connect Australian researchers into this global ecosystem.

And when asked how new biologists should handle their data he challenges: first think about developing systems and methodologies to describe experimental inputs, methods and outputs that would enable you to share this information with your ‘future self’. Indeed!

Full interview.

 

 


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Open Science: an interview with Rob Lanfear

Category : open science

ANU Senior Researcher Rob Lanfear left evo-devo research for the more open community engaged in bioinformatics. He loves the fast-paced action in his field, which he feels must be kept open if it is to deliver timely research outcomes: Nanopore sequencing is the best example I can think of. This is an exceptionally fast-moving field, in which the instrument and data themselves change almost every month. To be at the cutting edge of this field requires almost daily updates on everything from lab protocols to the final data analyses. Traditional publication cycles are far too slow to be useful here. Instead, the community is fantastically open. People are sharing their protocols on sites like www.protocols.io, writing detailed blog posts on tips and tricks for analyses, releasing bioinformatics code early and often on GitHub, and posting preprints as soon as an analysis is complete. Bioinformatics plays an absolutely key role here.

Full interview.


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EMBL-ABR network: an interview with Rochelle Tractenberg

Director, Collaborative for Research on Outcomes and -Metrics, an institute she established, Rochelle Tractenberg is a multi-disciplinary expert who brings many years of experience as a statistician to her insights into the fast-moving world of bioinformatics. She has a great deal to say about Open Science in this month’s interview, and concludes:

There are international efforts in bioinformatics and in open science (and in open bioinformatics science), and describing, committing to, and sharing an Australian model that prioritises rigour, reproducibility, engagement and transparency could exert a positive influence on these international conversations.

Full interview.


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EMBL-ABR: an interview with Malvika Sharan

Category : open science

This week we interview EMBL Computational Biologist, Malvika Sharan on the subject of Open Science. Her view is that there are ways for biologists to protect their intellectual property and still contribute to Open Science using the example of biorXiv, which allows pre-publication archiving and distribution of manuscripts and data related to biosciences.

Full interview.


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