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Community-Driven Data Analysis Training for Biology.
Batut B, Hiltemann S, Bagnacani A, Baker D, Bhardwaj V, Blank C, Bretaudeau A, Brillet-Guéguen L, Čech M, Chilton J, Clements D, Doppelt-Azeroual O, Erxleben A, Freeberg MA, Gladman S, Hoogstrate Y, Hotz HR, Houwaart T, Jagtap P, Larivière D, Le Corguillé G, Manke T, Mareuil F, Ramírez F, Ryan D, Sigloch FC, Soranzo N, Wolff J, Videm P, Wolfien M, Wubuli A, Yusuf D; Galaxy Training Network; Taylor J, Backofen R, Nekrutenko A, Grüning B. Batut B, et al. Among authors: nekrutenko a. Cell Syst. 2018 Jun 27;6(6):752-758.e1. doi: 10.1016/j.cels.2018.05.012. Cell Syst. 2018. PMID: 29953864 Free PMC article.
Galaxy: a web-based genome analysis tool for experimentalists.
Blankenberg D, Von Kuster G, Coraor N, Ananda G, Lazarus R, Mangan M, Nekrutenko A, Taylor J. Blankenberg D, et al. Among authors: nekrutenko a. Curr Protoc Mol Biol. 2010 Jan;Chapter 19:Unit 19.10.1-21. doi: 10.1002/0471142727.mb1910s89. Curr Protoc Mol Biol. 2010. PMID: 20069535 Free PMC article.
Web-based analysis of (Epi-) genome data using EpiGRAPH and Galaxy.
Bock C, Von Kuster G, Halachev K, Taylor J, Nekrutenko A, Lengauer T. Bock C, et al. Among authors: nekrutenko a. Methods Mol Biol. 2010;628:275-96. doi: 10.1007/978-1-60327-367-1_15. Methods Mol Biol. 2010. PMID: 20238087 Free PMC article.
Manipulation of FASTQ data with Galaxy.
Blankenberg D, Gordon A, Von Kuster G, Coraor N, Taylor J, Nekrutenko A; Galaxy Team. Blankenberg D, et al. Among authors: nekrutenko a. Bioinformatics. 2010 Jul 15;26(14):1783-5. doi: 10.1093/bioinformatics/btq281. Epub 2010 Jun 18. Bioinformatics. 2010. PMID: 20562416 Free PMC article.
Galaxy CloudMan: delivering cloud compute clusters.
Afgan E, Baker D, Coraor N, Chapman B, Nekrutenko A, Taylor J. Afgan E, et al. Among authors: nekrutenko a. BMC Bioinformatics. 2010 Dec 21;11 Suppl 12(Suppl 12):S4. doi: 10.1186/1471-2105-11-S12-S4. BMC Bioinformatics. 2010. PMID: 21210983 Free PMC article.
Using Galaxy to perform large-scale interactive data analyses.
Hillman-Jackson J, Clements D, Blankenberg D, Taylor J, Nekrutenko A, Team G. Hillman-Jackson J, et al. Among authors: nekrutenko a. Curr Protoc Bioinformatics. 2012 Jun;Chapter 10:10.5.1-10.5.47. doi: 10.1002/0471250953.bi1005s38. Curr Protoc Bioinformatics. 2012. PMID: 22700312 Free PMC article.
The anatomy of successful computational biology software.
Altschul S, Demchak B, Durbin R, Gentleman R, Krzywinski M, Li H, Nekrutenko A, Robinson J, Rasband W, Taylor J, Trapnell C. Altschul S, et al. Among authors: nekrutenko a. Nat Biotechnol. 2013 Oct;31(10):894-7. doi: 10.1038/nbt.2721. Nat Biotechnol. 2013. PMID: 24104757 Free PMC article. No abstract available.
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