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SimLoRD: Simulation of Long Read Data.
Stöcker BK, Köster J, Rahmann S. Stöcker BK, et al. Among authors: koster j. 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. 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: koster j. 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: koster j. 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
Next-generation RNA sequencing reveals differential expression of MYCN target genes and suggests the mTOR pathway as a promising therapy target in MYCN-amplified neuroblastoma.
Schramm A, Köster J, Marschall T, Martin M, Schwermer M, Fielitz K, Büchel G, Barann M, Esser D, Rosenstiel P, Rahmann S, Eggert A, Schulte JH. Schramm A, et al. Among authors: koster j. Int J Cancer. 2013 Feb 1;132(3):E106-15. doi: 10.1002/ijc.27787. Epub 2012 Sep 26. Int J Cancer. 2013. PMID: 22907398 Free 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: koster j. Nat Genet. 2015 Aug;47(8):872-7. doi: 10.1038/ng.3349. Epub 2015 Jun 29. Nat Genet. 2015. PMID: 26121086
830 results