Author profile

Scott Edmunds

Executive Editor of GigaScience, and data nerd working at the BGI and based in Hong Kong. Open Knowledge Open Science Ambassador and Executive Committee member for Open Data Hong Kong.

Bohemian Bashfully. Baroque birthdays and bingo in Prague.

- July 31, 2017

Every summer we celebrate our birthday at the ISMB (Intelligent Systems for Molecular Biology) conference, and this was a particularly memorable and important one – being the 5th birthday of GigaScience, and 25th edition of the ISMB. Having ISMB in Prague this year, the historic capital of old Bohemia was particularly appreciated by the attendees, […]

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Data Intensive Software Publishing & Sailing The Code Ocean. Q&A With Ruibang Luo.

- June 27, 2017

GigaScience is always trying to push the boundaries of how we disseminate reproducible research, and to adapt to the challenges of dealing with experiments become more data-intensive. We now showcase a new reproducible research platform we’ve been testing called Code Ocean, and have a Q&A with our Author Ruibang Luo on his experiences using it. […]

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Enter the GigaScience Prize Track at ICG-12

- May 29, 2017

Call for Submissions – Win Prizes and Join us in Shenzhen for ICG-12 Being co-published by BGI and based at their Hong Kong office we are regular participants at their yearly ICG (International Conference on Genomics) conference in Shenzhen. Since the very first meeting in 2006, ICG has grown to become one of the most […]

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Guardians of the Galaxy Workflow

- April 28, 2017

While the Guardians of the Galaxy film franchise has just released its second film, the GigaScience Galaxy series has just published its 10th, 11th and 12th papers. And all without the need of expensive CGI, although we do have our GigaGalaxy server on standby for additional computational support. For those not part of their large […]

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Getting the Buzz on Bee Parasites. Author Q&A with Tatsuhiko Kadowaki

- February 24, 2017

The decline of global honeybee populations are a major environment concern, because of their vital role in our food systems and pollination of flowering plants. Twenty first century ‘Omics is coming to the rescue, and published in GigaScience this week is an article that presents the genome and proteome of a mahor threat to bee […]

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Ginkgo genome fills an evolutionary hole

- November 25, 2016

New in GigaScience is an article that presents the genome sequence of Ginkgo biloba, the oldest extant tree species. The research was carried out by a team of scientists at BGI, Zheijiang University and the Chinese Academy of Sciences, who tackled and analyzed an exceptionally large genome, totalling more than 10Gb. Ginkgo is considered by some as a “living fossil”, its form and structure having changed very little in 270 million years. Its unique position in the evolutionary tree of life means the ginkgo genome will provide an extensive resource for studying early events in tree development and evolution.

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Personal Genomics Enters a New Phase

- October 11, 2016

Individual human genomes are diploid in nature, with half of the homologous chromosomes derived from each parent. The context in which variations occur on each individual chromosome has profound effects on the action and clinical importance of the genes on it, but this “haplotype” information has been mostly ignored in genomics research to date. A wealth of new data released from the Personal Genome Project via a new Data Note helps fill this gap by releasing the largest set of high coverage whole human genome assemblies with experimentally determined haplotypes to date.

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Guest posting: Conda as a new standard for Galaxy tool dependencies

- September 20, 2016

The Galaxy community is one that shares similar reproducibility goals with GigaScience, having a computational platform that allows users to share workflows, histories and wrapped computational tools in an easy-to-use and open source interface. Björn Grüning and The Intergalactic Utilities Commission of Galaxy have a guest posting here to announce new changes that will make development and presentation of tools and pipelines through Galaxy even more reproducible and usable.

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Of big fish and small genomes. Ocean sunfish shines.

- September 12, 2016

The genome of the ocean sunfish (Mola mola), the world’s largest bony fish, has been just been published in GigaScience by researchers at A*STAR, Singapore, and China National Genebank. Here we talk to the researchers, including Nobel Laureate Sydney Brenner, on how the project came together, the slightly unusual sample collection, and how hope this work helps to provide insight into the fish’s extraordinary growth rate and unique body shape.

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Guest posting: Building a PhenoMeNal metabolomics e-infrastructure

- July 19, 2016

David Johnson and the PhenoMeNal consortium have a guest posting on their efforts in building an open, community-supported, e-infrastructure for medical metabolomics data, and how they are seeking community feedback on the requirements for the data infrastructures needed.

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