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Data driven blogging from the GigaScience editors
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Open AccessPublishingAnnotationBrainBrainhackBiological Sciences
Published

Cheering Ourselves up with CUDDEL(s) and Hackathons We have been working closely with the Metabolomics community for a few years now, participating in hackathon events including BYO Data parties and Hack-the-Spec – ISA as a FAIR research object – thanks to our collaboration with the ISA Team at the Oxford e-Research Centre and funding from our BBSRC UK-China partnering award.

BiologyEvolutionGenome AssemblyGenomicsOpen DataBiological Sciences
Published

Not many tree species are iconic enough to have inspired Goethe love poems, but the distinctive and beautiful heart shaped leaves of ginkgo have made it a popular symbol in art and design. Coming from East Asia and having a long association with Buddhist temples and parks in China, Korea and Japan, it was thought to be extinct in the wild and only in more recent times were small wild populations identified in mountain groves in South West China.

TechnologyBig DataBiodiversityData Intensive EcologyEcologyBiological Sciences
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Taylor Noble As the ecology community expands, it is now adopting new ways of making sense of the plethora of data produced from diverse approaches, including ocean research, eco-genomics, limnology, and macrosystems ecology, through more integrative means – improving our understanding of biology in a broader sense.

TechnologyUsegalaxyBioinformaticsContainersGalaxyBiological Sciences
Published

Björn Grüning modelling one of our t-shirts. Nowadays, massive amounts of diverse data are generated in biomedical research. To manage it and extract useful information, bioinformatic solutions are needed and software must be developed. The development of a tool should always follow a similar process.

BiologyFishG10KGenomeGenome AssemblyBiological Sciences
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**Deep (ocean) sequencing. Big-(fish) data. **The ocean sunfish, must officially be one of the world’s weirdest creatures to enter the “genome club”, and have its genetic code mapped. Laying the most eggs of any other known vertebrate (up to 300,000,000 at a time), and starting out as the size of the head of a pin, sunfish grow to become to largest bony fish in the sea.

BiologyAppleGenomicsNGSPACbioBiological Sciences
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Gigascience this week published a high quality genome of the apple, the “golden delicious” variety, to be precise. Although a version of the Malus domestica genome has already been available, Xuewei Li et al .’s de novo assembly significantly improves on that previous ressource, using a healthy injection of long reads from third generation, “single-molecule” sequencing technology.

MedicineTechnologyBig DataGuest PostMedical DataBiological Sciences
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Building an open, community-supported, e-infrastructure for medical metabolomics data. The European Union’s Horizon 2020 research and innovation programme is funding the PhenoMeNal (Phenome and Metabolome aNalysis) project that aims to support data processing and analysis pipelines for molecular phenotype data generated from metabolomics applications.

BiologyOpen AccessBioinformaticsBOSCComputational BiologyBiological Sciences
Published

At Disney World infancy ends at 3, or at least that is the age children have to start purchasing tickets. It seemed appropriate to celebrate our 4th birthday there. Or at least at the #ISMB16 Computational Biology meeting that was held this week at the Walt Disney World Resort.

Open AccessPublishingBOSCConferencesISMBBiological Sciences
Published

Join the Open Data club. Every year we catch up with fellow enthusiasts of open data, open source and open science at BOSC, the Bioinformatics Open Source Conference that is a Special Interest Group of the ISCB’s annual ISMB conference. This year there is an interesting juxtaposition with the location, being held at the Disney World resort in Orlando.