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Efficient storage of high throughput DNA sequencing data using reference-based compression.
Hsi-Yang Fritz M, Leinonen R, Cochrane G, Birney E. Hsi-Yang Fritz M, et al. Genome Res. 2011 May;21(5):734-40. doi: 10.1101/gr.114819.110. Epub 2011 Jan 18. Genome Res. 2011. PMID: 21245279 Free PMC article.
The EMBL Nucleotide Sequence Database: major new developments.
Stoesser G, Baker W, van den Broek A, Garcia-Pastor M, Kanz C, Kulikova T, Leinonen R, Lin Q, Lombard V, Lopez R, Mancuso R, Nardone F, Stoehr P, Tuli MA, Tzouvara K, Vaughan R. Stoesser G, et al. Nucleic Acids Res. 2003 Jan 1;31(1):17-22. doi: 10.1093/nar/gkg021. Nucleic Acids Res. 2003. PMID: 12519939 Free PMC article.
The EMBL sequence version archive.
Leinonen R, Nardone F, Oyewole O, Redaschi N, Stoehr P. Leinonen R, et al. Bioinformatics. 2003 Sep 22;19(14):1861-2. doi: 10.1093/bioinformatics/btg248. Bioinformatics. 2003. PMID: 14512364
The EMBL Nucleotide Sequence Database.
Kulikova T, Aldebert P, Althorpe N, Baker W, Bates K, Browne P, van den Broek A, Cochrane G, Duggan K, Eberhardt R, Faruque N, Garcia-Pastor M, Harte N, Kanz C, Leinonen R, Lin Q, Lombard V, Lopez R, Mancuso R, McHale M, Nardone F, Silventoinen V, Stoehr P, Stoesser G, Tuli MA, Tzouvara K, Vaughan R, Wu D, Zhu W, Apweiler R. Kulikova T, et al. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D27-30. doi: 10.1093/nar/gkh120. Nucleic Acids Res. 2004. PMID: 14681351 Free PMC article.
EMBL Nucleotide Sequence Database: developments in 2005.
Cochrane G, Aldebert P, Althorpe N, Andersson M, Baker W, Baldwin A, Bates K, Bhattacharyya S, Browne P, van den Broek A, Castro M, Duggan K, Eberhardt R, Faruque N, Gamble J, Kanz C, Kulikova T, Lee C, Leinonen R, Lin Q, Lombard V, Lopez R, McHale M, McWilliam H, Mukherjee G, Nardone F, Pastor MP, Sobhany S, Stoehr P, Tzouvara K, Vaughan R, Wu D, Zhu W, Apweiler R. Cochrane G, et al. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D10-5. doi: 10.1093/nar/gkj130. Nucleic Acids Res. 2006. PMID: 16381823 Free PMC article.
Priorities for nucleotide trace, sequence and annotation data capture at the Ensembl Trace Archive and the EMBL Nucleotide Sequence Database.
Cochrane G, Akhtar R, Aldebert P, Althorpe N, Baldwin A, Bates K, Bhattacharyya S, Bonfield J, Bower L, Browne P, Castro M, Cox T, Demiralp F, Eberhardt R, Faruque N, Hoad G, Jang M, Kulikova T, Labarga A, Leinonen R, Leonard S, Lin Q, Lopez R, Lorenc D, McWilliam H, Mukherjee G, Nardone F, Plaister S, Robinson S, Sobhany S, Vaughan R, Wu D, Zhu W, Apweiler R, Hubbard T, Birney E. Cochrane G, et al. Nucleic Acids Res. 2008 Jan;36(Database issue):D5-12. doi: 10.1093/nar/gkm1018. Epub 2007 Nov 26. Nucleic Acids Res. 2008. PMID: 18039715 Free PMC article.
Petabyte-scale innovations at the European Nucleotide Archive.
Cochrane G, Akhtar R, Bonfield J, Bower L, Demiralp F, Faruque N, Gibson R, Hoad G, Hubbard T, Hunter C, Jang M, Juhos S, Leinonen R, Leonard S, Lin Q, Lopez R, Lorenc D, McWilliam H, Mukherjee G, Plaister S, Radhakrishnan R, Robinson S, Sobhany S, Hoopen PT, Vaughan R, Zalunin V, Birney E. Cochrane G, et al. Nucleic Acids Res. 2009 Jan;37(Database issue):D19-25. doi: 10.1093/nar/gkn765. Epub 2008 Oct 31. Nucleic Acids Res. 2009. PMID: 18978013 Free PMC article.
Improvements to services at the European Nucleotide Archive.
Leinonen R, Akhtar R, Birney E, Bonfield J, Bower L, Corbett M, Cheng Y, Demiralp F, Faruque N, Goodgame N, Gibson R, Hoad G, Hunter C, Jang M, Leonard S, Lin Q, Lopez R, Maguire M, McWilliam H, Plaister S, Radhakrishnan R, Sobhany S, Slater G, Ten Hoopen P, Valentin F, Vaughan R, Zalunin V, Zerbino D, Cochrane G. Leinonen R, et al. Nucleic Acids Res. 2010 Jan;38(Database issue):D39-45. doi: 10.1093/nar/gkp998. Epub 2009 Nov 11. Nucleic Acids Res. 2010. PMID: 19906712 Free PMC article.
The European Nucleotide Archive.
Leinonen R, Akhtar R, Birney E, Bower L, Cerdeno-Tárraga A, Cheng Y, Cleland I, Faruque N, Goodgame N, Gibson R, Hoad G, Jang M, Pakseresht N, Plaister S, Radhakrishnan R, Reddy K, Sobhany S, Ten Hoopen P, Vaughan R, Zalunin V, Cochrane G. Leinonen R, et al. Nucleic Acids Res. 2011 Jan;39(Database issue):D28-31. doi: 10.1093/nar/gkq967. Epub 2010 Oct 23. Nucleic Acids Res. 2011. PMID: 20972220 Free PMC article.
The sequence read archive.
Leinonen R, Sugawara H, Shumway M; International Nucleotide Sequence Database Collaboration. Leinonen R, et al. Nucleic Acids Res. 2011 Jan;39(Database issue):D19-21. doi: 10.1093/nar/gkq1019. Epub 2010 Nov 9. Nucleic Acids Res. 2011. PMID: 21062823 Free PMC article.
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