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Snakemake--a scalable bioinformatics workflow engine.
Köster J, Rahmann S. Köster J, et al. Among authors: rahmann s. Bioinformatics. 2012 Oct 1;28(19):2520-2. doi: 10.1093/bioinformatics/bts480. Epub 2012 Aug 20. Bioinformatics. 2012. PMID: 22908215
SimLoRD: Simulation of Long Read Data.
Stöcker BK, Köster J, Rahmann S. Stöcker BK, et al. Among authors: rahmann s. Bioinformatics. 2016 Sep 1;32(17):2704-6. doi: 10.1093/bioinformatics/btw286. Epub 2016 May 10. Bioinformatics. 2016. PMID: 27166244
Snakemake-a scalable bioinformatics workflow engine.
Köster J, Rahmann S. Köster J, et al. Among authors: rahmann s. Bioinformatics. 2018 Oct 15;34(20):3600. doi: 10.1093/bioinformatics/bty350. Bioinformatics. 2018. PMID: 29788404 No abstract available.
Sustainable data analysis with Snakemake.
Mölder F, Jablonski KP, Letcher B, Hall MB, Tomkins-Tinch CH, Sochat V, Forster J, Lee S, Twardziok SO, Kanitz A, Wilm A, Holtgrewe M, Rahmann S, Nahnsen S, Köster J. Mölder F, et al. Among authors: rahmann s. F1000Res. 2021 Jan 18;10:33. doi: 10.12688/f1000research.29032.2. eCollection 2021. F1000Res. 2021. PMID: 34035898 Free PMC article.
Machine learning reveals a PD-L1-independent prediction of response to immunotherapy of non-small cell lung cancer by gene expression context.
Wiesweg M, Mairinger F, Reis H, Goetz M, Kollmeier J, Misch D, Stephan-Falkenau S, Mairinger T, Walter RFH, Hager T, Metzenmacher M, Eberhardt WEE, Zaun G, Köster J, Stuschke M, Aigner C, Darwiche K, Schmid KW, Rahmann S, Schuler M. Wiesweg M, et al. Among authors: rahmann s. Eur J Cancer. 2020 Nov;140:76-85. doi: 10.1016/j.ejca.2020.09.015. Epub 2020 Oct 12. Eur J Cancer. 2020. PMID: 33059196
Exon-level expression analyses identify MYCN and NTRK1 as major determinants of alternative exon usage and robustly predict primary neuroblastoma outcome.
Schramm A, Schowe B, Fielitz K, Heilmann M, Martin M, Marschall T, Köster J, Vandesompele J, Vermeulen J, de Preter K, Koster J, Versteeg R, Noguera R, Speleman F, Rahmann S, Eggert A, Morik K, Schulte JH. Schramm A, et al. Among authors: rahmann s. Br J Cancer. 2012 Oct 9;107(8):1409-17. doi: 10.1038/bjc.2012.391. Br J Cancer. 2012. PMID: 23047593 Free PMC article.
Mutational dynamics between primary and relapse neuroblastomas.
Schramm A, Köster J, Assenov Y, Althoff K, Peifer M, Mahlow E, Odersky A, Beisser D, Ernst C, Henssen AG, Stephan H, Schröder C, Heukamp L, Engesser A, Kahlert Y, Theissen J, Hero B, Roels F, Altmüller J, Nürnberg P, Astrahantseff K, Gloeckner C, De Preter K, Plass C, Lee S, Lode HN, Henrich KO, Gartlgruber M, Speleman F, Schmezer P, Westermann F, Rahmann S, Fischer M, Eggert A, Schulte JH. Schramm A, et al. Among authors: rahmann s. Nat Genet. 2015 Aug;47(8):872-7. doi: 10.1038/ng.3349. Epub 2015 Jun 29. Nat Genet. 2015. PMID: 26121086
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