Scott Edmunds talk at the first EMP meeting introducing BGI and BMC's new GigaScience journal.

1. Scott Edmunds Data Dissemination: Difficulties, Data Citation, DOIs and, (“Mo Data Mo Problems”)

2. The Ecoresponsive Genome of Daphnia pulexColbourne et al., Science4 February 2011: 200Mb Genome, 30,907 genes Duplicated genes most responsive to ecological challenges

3. Daphnia Genome Consortium wFleabase: Mar 2006 Genome release: July 2007 Genome Published: Feb 2011 >58 companion papers https://daphnia.cgb.indiana.edu/Publications

4. Difficulties Flickr cc: opensourceway

5. Sequencing cost($ per Mbp) Moore’s Law ~100,000X Sequencing Source: E Lander/Broad

6. Sequencing Output Data Storage Moore’s/Kryders Law

7. Sequencing Output Data Publication Dissemination?

8. Potential sequencing capacity 1 IlluminaHiSeq 2000 (+Truseq upgrade) = 600Gb/run (12 days) X 128 Hiseq= 6Tb/day = >2Pb/year = ~ 2000 Human Genomes/day

9. SRA Closure

10. Incentives/credit Credit where credit is overdue: “One option would be to provide researchers who release data to public repositories with a means of accreditation.” “An ability to search the literature for all online papers that used a particular data set would enable appropriate attribution for those who share. “ Nature Biotechnology 27, 579 (2009) Prepublication data sharing (Toronto International Data Release Workshop) “Data producers benefit from creating a citable reference, as it can later be used to reflect impact of the data sets.” Nature461, 168-170 (2009)

12. Researchers, authors, publishers know how to use them

13. Put datasets on the same playing field as articles Dataset Yancheva et al (2007). Analyses on sediment of Lake Maar. PANGAEA. doi:10.1594/PANGAEA.587840

14. Datacitation: Datacite and DOIs >1 million DOIs since Dec 2009 Central metadata repository to link with WoS/ISI - finally can track and credit use!

15. Coming soon… Large-Scale Data Journal/Database In conjunction with: Editor-in-Chief: Laurie Goodman, PhD Editor: Scott Edmunds, PhD Assistant Editor: Alexandra Basford, PhD www.gigasciencejournal.com

17. Utility/Usability

18. Standards/Searchability/Scale/Sharing

19. Data publishing/DOIwww.gigasciencejournal.com

20. Use of Data = Importance + Usability easier to assess subjective? www.gigasciencejournal.com

22. Integrated tools to promote more widespread access, viewing, and analysis of data.

23. Encourage and aid use of workflow systems for methods (e.g. submission of Galaxy XML files).www.gigasciencejournal.com

25. Allsupporting data must be publically available.

26. Ask for MIBBI compliance and use of reporting checklists.

27. Part of the Biosharing network.www.gigasciencejournal.com

29. Data hosting will follow standard funding agency and community guidelines.

30. DOI assignment available for submitted data to allow ease of findingand citing datasets, as well as for citation tracking.www.gigasciencejournal.com

31. Our first DOI: 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: 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 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.

32. E. Coli #crowdsourcing: the first tweenome?

33. Questions? scott.edmunds@genomics.org.cn editorial@gigasciencejournal.com @gigascience www.gigasciencejournal.com