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Multiple reference genomes and transcriptomes for Arabidopsis thaliana.
Gan X, Stegle O, Behr J, Steffen JG, Drewe P, Hildebrand KL, Lyngsoe R, Schultheiss SJ, Osborne EJ, Sreedharan VT, Kahles A, Bohnert R, Jean G, Derwent P, Kersey P, Belfield EJ, Harberd NP, Kemen E, Toomajian C, Kover PX, Clark RM, Rätsch G, Mott R. Gan X, et al. Among authors: behr j. Nature. 2011 Aug 28;477(7365):419-23. doi: 10.1038/nature10414. Nature. 2011. PMID: 21874022 Free PMC article.
Assessment of transcript reconstruction methods for RNA-seq.
Steijger T, Abril JF, Engström PG, Kokocinski F; RGASP Consortium; Hubbard TJ, Guigó R, Harrow J, Bertone P. Steijger T, et al. Nat Methods. 2013 Dec;10(12):1177-84. doi: 10.1038/nmeth.2714. Epub 2013 Nov 3. Nat Methods. 2013. PMID: 24185837 Free PMC article.
Systematic evaluation of spliced alignment programs for RNA-seq data.
Engström PG, Steijger T, Sipos B, Grant GR, Kahles A, Rätsch G, Goldman N, Hubbard TJ, Harrow J, Guigó R, Bertone P; RGASP Consortium. Engström PG, et al. Nat Methods. 2013 Dec;10(12):1185-91. doi: 10.1038/nmeth.2722. Epub 2013 Nov 3. Nat Methods. 2013. PMID: 24185836 Free PMC article.
Alternative Splicing Substantially Diversifies the Transcriptome during Early Photomorphogenesis and Correlates with the Energy Availability in Arabidopsis.
Hartmann L, Drewe-Boß P, Wießner T, Wagner G, Geue S, Lee HC, Obermüller DM, Kahles A, Behr J, Sinz FH, Rätsch G, Wachter A. Hartmann L, et al. Among authors: behr j. Plant Cell. 2016 Nov;28(11):2715-2734. doi: 10.1105/tpc.16.00508. Epub 2016 Nov 1. Plant Cell. 2016. PMID: 27803310 Free PMC article.
MMR: a tool for read multi-mapper resolution.
Kahles A, Behr J, Rätsch G. Kahles A, et al. Among authors: behr j. Bioinformatics. 2016 Mar 1;32(5):770-2. doi: 10.1093/bioinformatics/btv624. Epub 2015 Oct 30. Bioinformatics. 2016. PMID: 26519503 Free PMC article.
mGene.web: a web service for accurate computational gene finding.
Schweikert G, Behr J, Zien A, Zeller G, Ong CS, Sonnenburg S, Rätsch G. Schweikert G, et al. Among authors: behr j. Nucleic Acids Res. 2009 Jul;37(Web Server issue):W312-6. doi: 10.1093/nar/gkp479. Epub 2009 Jun 3. Nucleic Acids Res. 2009. PMID: 19494180 Free PMC article.
Accurate splice site prediction using support vector machines.
Sonnenburg S, Schweikert G, Philips P, Behr J, Rätsch G. Sonnenburg S, et al. Among authors: behr j. BMC Bioinformatics. 2007;8 Suppl 10(Suppl 10):S7. doi: 10.1186/1471-2105-8-S10-S7. BMC Bioinformatics. 2007. PMID: 18269701 Free PMC article.
mGene: accurate SVM-based gene finding with an application to nematode genomes.
Schweikert G, Zien A, Zeller G, Behr J, Dieterich C, Ong CS, Philips P, De Bona F, Hartmann L, Bohlen A, Krüger N, Sonnenburg S, Rätsch G. Schweikert G, et al. Among authors: behr j. Genome Res. 2009 Nov;19(11):2133-43. doi: 10.1101/gr.090597.108. Epub 2009 Jun 29. Genome Res. 2009. PMID: 19564452 Free PMC article.
1,180 results