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Scott Edmunds<br />					:: a new resource for the big-data community.<br />www.gigasciencejournal.com<br />
Potential sequencing capacity<br />1 IlluminaHiSeq 2000 (+Truseq upgrade) <br />= 600Gb/run (12 days)<br />X 128 Hiseq= 6T...
Incentives/credit<br />Credit where credit is overdue:<br />“One option would be to provide researchers who release data t...
Now taking submissions…<br />Large-Scale Data <br />Journal/Database<br />In conjunction with:<br />Editor-in-Chief: Lauri...
Criteria and Focus of Journal/Database<br /><ul><li>Reproducibility/Reuse
Utility/Usability
Standards/Searchability/Scale/Sharing
Hosting/Tools</li></ul>www.gigasciencejournal.com<br />
Data publishing/DOI<br /><ul><li>New journal format combines standard manuscript publication with an extensive database to...
Data hosting will follow standard funding agency and community guidelines.
DOI  assignment available for submitted data to allow ease of findingand citing datasets, as well as for citation tracking...
Our first DOI:<br />To maximize its utility to the research community and aid those  fighting the current epidemic, genomi...
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Scott Edmunds: GigaScience Datacite meeting Rapid Fire Talk

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Scott Edmunds Pecha Kucha (rapid fire) talk at Datacite meeting. Berkeley, 24th August 2011

Published in: Technology, Health & Medicine
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Transcript of "Scott Edmunds: GigaScience Datacite meeting Rapid Fire Talk"

  1. 1. Scott Edmunds<br /> :: a new resource for the big-data community.<br />www.gigasciencejournal.com<br />
  2. 2. Potential sequencing capacity<br />1 IlluminaHiSeq 2000 (+Truseq upgrade) <br />= 600Gb/run (12 days)<br />X 128 Hiseq= 6Tb/day = >2Pb/year<br />= ~ 2000 Human Genomes/day<br />
  3. 3. Incentives/credit<br />Credit where credit is overdue:<br />“One option would be to provide researchers who release data to public repositories with a means of accreditation.”<br />“An ability to search the literature for all online papers that used a particular data set would enable appropriate attribution for those who share. “<br />Nature Biotechnology 27, 579 (2009) <br />Prepublication data sharing <br />(Toronto International Data Release Workshop)<br />“Data producers benefit from creating a citable reference, as it can later be used to reflect impact of the data sets.”<br />Nature461, 168-170 (2009) <br />
  4. 4. Now taking submissions…<br />Large-Scale Data <br />Journal/Database<br />In conjunction with:<br />Editor-in-Chief: Laurie Goodman, PhD<br /> Editor: Scott Edmunds, PhD<br /> Assistant Editor: Alexandra Basford, PhD<br />www.gigasciencejournal.com<br />
  5. 5. Criteria and Focus of Journal/Database<br /><ul><li>Reproducibility/Reuse
  6. 6. Utility/Usability
  7. 7. Standards/Searchability/Scale/Sharing
  8. 8. Hosting/Tools</li></ul>www.gigasciencejournal.com<br />
  9. 9. Data publishing/DOI<br /><ul><li>New journal format combines standard manuscript publication with an extensive database to host all associated data.
  10. 10. Data hosting will follow standard funding agency and community guidelines.
  11. 11. DOI assignment available for submitted data to allow ease of findingand citing datasets, as well as for citation tracking.</li></ul>www.gigasciencejournal.com<br />
  12. 12. Our first DOI:<br />To maximize its utility to the research community and aid those  fighting the current epidemic, genomic data is released here into the public domain under a CC0 license. Until the publication of research papers on the assembly and whole-genome analysis of this isolate we would ask you to cite this dataset as:<br />Li, D; Xi, F; Zhao, M; Liang, Y; Chen, W; Cao, S; Xu, R; Wang, G; Wang, J; Zhang, Z; Li, Y; Cui, Y; Chang, C; Cui, C; Luo, Y; Qin, J; Li, S; Li, J; Peng, Y; Pu, F; Sun, Y; Chen,Y; Zong, Y; Ma, X; Yang, X; Cen, Z; Zhao, X; Chen, F; Yin, X; Song,Y ; Rohde, H; Li, Y; Wang, J; Wang, J and the Escherichia coli O104:H4 TY-2482 isolate genome sequencing consortium (2011) Genomic data from Escherichia coli O104:H4 isolate TY-2482. BGI Shenzhen. doi:10.5524/100001 http://dx.doi.org/10.5524/100001<br />To the extent possible under law, BGI Shenzhen has waived all copyright and related or neighboring rights to Genomic Data from the 2011 E. coli outbreak. This work is published from: China. <br />
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  15. 15. “The way that the genetic data of the 2011 E. coli strain were disseminated globally suggests a more effective approach for tackling public health problems. Both groups put their sequencing data on the Internet, so scientists the world over could immediately begin their own analysis of the bug's makeup. BGI scientists also are using Twitter to communicate their latest findings.”<br />“German scientists and their colleagues at the Beijing Genomics Institute in China have been working on uncovering secrets of the outbreak. BGI scientists revised their draft genetic sequence of the E. coli strain and have been sharing their data with dozens of scientists around the world as a way to "crowdsource" this data. By publishing their data publicy and freely, these other scientists can have a look at the genetic structure, and try to sort it out for themselves.” <br />
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  17. 17. G10K Genomes Get DOI®s<br />doi:10.5524/100004 <br />
  18. 18. We want your data!<br />scott.edmunds@genomics.org.cn<br />editorial@gigasciencejournal.com<br />@gigascience<br />www.gigasciencejournal.com<br />
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