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A single-cell RNA-sequencing training and analysis suite using the Galaxy framework.
Tekman M, Batut B, Ostrovsky A, Antoniewski C, Clements D, Ramirez F, Etherington GJ, Hotz HR, Scholtalbers J, Manning JR, Bellenger L, Doyle MA, Heydarian M, Huang N, Soranzo N, Moreno P, Mautner S, Papatheodorou I, Nekrutenko A, Taylor J, Blankenberg D, Backofen R, Grüning B. Tekman M, et al. Among authors: blankenberg d. Gigascience. 2020 Oct 20;9(10):giaa102. doi: 10.1093/gigascience/giaa102. Gigascience. 2020. PMID: 33079170 Free PMC article.
Galaxy: a platform for interactive large-scale genome analysis.
Giardine B, Riemer C, Hardison RC, Burhans R, Elnitski L, Shah P, Zhang Y, Blankenberg D, Albert I, Taylor J, Miller W, Kent WJ, Nekrutenko A. Giardine B, et al. Among authors: blankenberg d. Genome Res. 2005 Oct;15(10):1451-5. doi: 10.1101/gr.4086505. Epub 2005 Sep 16. Genome Res. 2005. PMID: 16169926 Free PMC article.
Using galaxy to perform large-scale interactive data analyses.
Taylor J, Schenck I, Blankenberg D, Nekrutenko A. Taylor J, et al. Among authors: blankenberg d. Curr Protoc Bioinformatics. 2007 Sep;Chapter 10:Unit 10.5. doi: 10.1002/0471250953.bi1005s19. Curr Protoc Bioinformatics. 2007. PMID: 18428782 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. 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.
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. Bioinformatics. 2010 Jul 15;26(14):1783-5. doi: 10.1093/bioinformatics/btq281. Epub 2010 Jun 18. Bioinformatics. 2010. PMID: 20562416 Free PMC article.
Making whole genome multiple alignments usable for biologists.
Blankenberg D, Taylor J, Nekrutenko A; Galaxy Team. Blankenberg D, et al. Bioinformatics. 2011 Sep 1;27(17):2426-8. doi: 10.1093/bioinformatics/btr398. Epub 2011 Jul 19. Bioinformatics. 2011. PMID: 21775304 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: blankenberg d. 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.
59 results