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247 results

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Page 1
Genomic variant annotation workflow for clinical applications.
Thurnherr T, Singer F, Stekhoven DJ, Beerenwinkel N. Thurnherr T, et al. Among authors: beerenwinkel n. F1000Res. 2016 Aug 12;5:1963. doi: 10.12688/f1000research.9357.2. eCollection 2016. F1000Res. 2016. PMID: 27990260 Free PMC article.
NGS-pipe: a flexible, easily extendable and highly configurable framework for NGS analysis.
Singer J, Ruscheweyh HJ, Hofmann AL, Thurnherr T, Singer F, Toussaint NC, Ng CKY, Piscuoglio S, Beisel C, Christofori G, Dummer R, Hall MN, Krek W, Levesque MP, Manz MG, Moch H, Papassotiropoulos A, Stekhoven DJ, Wild P, Wüst T, Rinn B, Beerenwinkel N. Singer J, et al. Among authors: beerenwinkel n. Bioinformatics. 2018 Jan 1;34(1):107-108. doi: 10.1093/bioinformatics/btx540. Bioinformatics. 2018. PMID: 28968639 Free PMC article.
Bioinformatics for precision oncology.
Singer J, Irmisch A, Ruscheweyh HJ, Singer F, Toussaint NC, Levesque MP, Stekhoven DJ, Beerenwinkel N. Singer J, et al. Among authors: beerenwinkel n. Brief Bioinform. 2019 May 21;20(3):778-788. doi: 10.1093/bib/bbx143. Brief Bioinform. 2019. PMID: 29272324 Free PMC article. Review.
From hype to reality: data science enabling personalized medicine.
Fröhlich H, Balling R, Beerenwinkel N, Kohlbacher O, Kumar S, Lengauer T, Maathuis MH, Moreau Y, Murphy SA, Przytycka TM, Rebhan M, Röst H, Schuppert A, Schwab M, Spang R, Stekhoven D, Sun J, Weber A, Ziemek D, Zupan B. Fröhlich H, et al. Among authors: beerenwinkel n. BMC Med. 2018 Aug 27;16(1):150. doi: 10.1186/s12916-018-1122-7. BMC Med. 2018. PMID: 30145981 Free PMC article.
Mutational interactions define novel cancer subgroups.
Kuipers J, Thurnherr T, Moffa G, Suter P, Behr J, Goosen R, Christofori G, Beerenwinkel N. Kuipers J, et al. Among authors: beerenwinkel n. Nat Commun. 2018 Oct 19;9(1):4353. doi: 10.1038/s41467-018-06867-x. Nat Commun. 2018. PMID: 30341300 Free PMC article.
SwissMTB: establishing comprehensive molecular cancer diagnostics in Swiss clinics.
Singer F, Irmisch A, Toussaint NC, Grob L, Singer J, Thurnherr T, Beerenwinkel N, Levesque MP, Dummer R, Quagliata L, Rothschild SI, Wicki A, Beisel C, Stekhoven DJ. Singer F, et al. Among authors: beerenwinkel n. BMC Med Inform Decis Mak. 2018 Oct 29;18(1):89. doi: 10.1186/s12911-018-0680-0. BMC Med Inform Decis Mak. 2018. PMID: 30373609 Free PMC article.
SCIM: universal single-cell matching with unpaired feature sets.
Stark SG, Ficek J, Locatello F, Bonilla X, Chevrier S, Singer F; Tumor Profiler Consortium; Rätsch G, Lehmann KV. Stark SG, et al. Bioinformatics. 2020 Dec 30;36(Suppl_2):i919-i927. doi: 10.1093/bioinformatics/btaa843. Bioinformatics. 2020. PMID: 33381818 Free PMC article.
The Tumor Profiler Study: integrated, multi-omic, functional tumor profiling for clinical decision support.
Irmisch A, Bonilla X, Chevrier S, Lehmann KV, Singer F, Toussaint NC, Esposito C, Mena J, Milani ES, Casanova R, Stekhoven DJ, Wegmann R, Jacob F, Sobottka B, Goetze S, Kuipers J, Sarabia Del Castillo J, Prummer M, Tuncel MA, Menzel U, Jacobs A, Engler S, Sivapatham S, Frei AL, Gut G, Ficek J, Miglino N; Tumor Profiler Consortium; Aebersold R, Bacac M, Beerenwinkel N, Beisel C, Bodenmiller B, Dummer R, Heinzelmann-Schwarz V, Koelzer VH, Manz MG, Moch H, Pelkmans L, Snijder B, Theocharides APA, Tolnay M, Wicki A, Wollscheid B, Rätsch G, Levesque MP. Irmisch A, et al. Among authors: beerenwinkel n. Cancer Cell. 2021 Mar 8;39(3):288-293. doi: 10.1016/j.ccell.2021.01.004. Epub 2021 Jan 21. Cancer Cell. 2021. PMID: 33482122 Free article.
scAmpi-A versatile pipeline for single-cell RNA-seq analysis from basics to clinics.
Bertolini A, Prummer M, Tuncel MA, Menzel U, Rosano-González ML, Kuipers J, Stekhoven DJ; Tumor Profiler consortium; Beerenwinkel N, Singer F. Bertolini A, et al. Among authors: beerenwinkel n. PLoS Comput Biol. 2022 Jun 3;18(6):e1010097. doi: 10.1371/journal.pcbi.1010097. eCollection 2022 Jun. PLoS Comput Biol. 2022. PMID: 35658001 Free PMC article.
247 results