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Pheno-seq - linking visual features and gene expression in 3D cell culture systems.
Tirier SM, Park J, Preußer F, Amrhein L, Gu Z, Steiger S, Mallm JP, Krieger T, Waschow M, Eismann B, Gut M, Gut IG, Rippe K, Schlesner M, Theis F, Fuchs C, Ball CR, Glimm H, Eils R, Conrad C. Tirier SM, et al. Among authors: schlesner m. Sci Rep. 2019 Aug 26;9(1):12367. doi: 10.1038/s41598-019-48771-4. Sci Rep. 2019. PMID: 31451731 Free PMC article.
Hypermutation of the inactive X chromosome is a frequent event in cancer.
Jäger N, Schlesner M, Jones DT, Raffel S, Mallm JP, Junge KM, Weichenhan D, Bauer T, Ishaque N, Kool M, Northcott PA, Korshunov A, Drews RM, Koster J, Versteeg R, Richter J, Hummel M, Mack SC, Taylor MD, Witt H, Swartman B, Schulte-Bockholt D, Sultan M, Yaspo ML, Lehrach H, Hutter B, Brors B, Wolf S, Plass C, Siebert R, Trumpp A, Rippe K, Lehmann I, Lichter P, Pfister SM, Eils R. Jäger N, et al. Among authors: schlesner m. Cell. 2013 Oct 24;155(3):567-81. doi: 10.1016/j.cell.2013.09.042. Epub 2013 Oct 17. Cell. 2013. PMID: 24139898 Free PMC article.
circlize Implements and enhances circular visualization in R.
Gu Z, Gu L, Eils R, Schlesner M, Brors B. Gu Z, et al. Among authors: schlesner m. Bioinformatics. 2014 Oct;30(19):2811-2. doi: 10.1093/bioinformatics/btu393. Epub 2014 Jun 14. Bioinformatics. 2014. PMID: 24930139
Hypermutation takes the driver's seat.
Schlesner M, Eils R. Schlesner M, et al. Genome Med. 2015 Mar 28;7(1):31. doi: 10.1186/s13073-015-0159-x. eCollection 2015. Genome Med. 2015. PMID: 25821521 Free PMC article.
A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing.
Alioto TS, Buchhalter I, Derdak S, Hutter B, Eldridge MD, Hovig E, Heisler LE, Beck TA, Simpson JT, Tonon L, Sertier AS, Patch AM, Jäger N, Ginsbach P, Drews R, Paramasivam N, Kabbe R, Chotewutmontri S, Diessl N, Previti C, Schmidt S, Brors B, Feuerbach L, Heinold M, Gröbner S, Korshunov A, Tarpey PS, Butler AP, Hinton J, Jones D, Menzies A, Raine K, Shepherd R, Stebbings L, Teague JW, Ribeca P, Giner FC, Beltran S, Raineri E, Dabad M, Heath SC, Gut M, Denroche RE, Harding NJ, Yamaguchi TN, Fujimoto A, Nakagawa H, Quesada V, Valdés-Mas R, Nakken S, Vodák D, Bower L, Lynch AG, Anderson CL, Waddell N, Pearson JV, Grimmond SM, Peto M, Spellman P, He M, Kandoth C, Lee S, Zhang J, Létourneau L, Ma S, Seth S, Torrents D, Xi L, Wheeler DA, López-Otín C, Campo E, Campbell PJ, Boutros PC, Puente XS, Gerhard DS, Pfister SM, McPherson JD, Hudson TJ, Schlesner M, Lichter P, Eils R, Jones DT, Gut IG. Alioto TS, et al. Among authors: schlesner m. Nat Commun. 2015 Dec 9;6:10001. doi: 10.1038/ncomms10001. Nat Commun. 2015. PMID: 26647970 Free PMC article.
CYP3A5 mediates basal and acquired therapy resistance in different subtypes of pancreatic ductal adenocarcinoma.
Noll EM, Eisen C, Stenzinger A, Espinet E, Muckenhuber A, Klein C, Vogel V, Klaus B, Nadler W, Rösli C, Lutz C, Kulke M, Engelhardt J, Zickgraf FM, Espinosa O, Schlesner M, Jiang X, Kopp-Schneider A, Neuhaus P, Bahra M, Sinn BV, Eils R, Giese NA, Hackert T, Strobel O, Werner J, Büchler MW, Weichert W, Trumpp A, Sprick MR. Noll EM, et al. Among authors: schlesner m. Nat Med. 2016 Mar;22(3):278-87. doi: 10.1038/nm.4038. Epub 2016 Feb 8. Nat Med. 2016. PMID: 26855150 Free PMC article.
Environment-induced epigenetic reprogramming in genomic regulatory elements in smoking mothers and their children.
Bauer T, Trump S, Ishaque N, Thürmann L, Gu L, Bauer M, Bieg M, Gu Z, Weichenhan D, Mallm JP, Röder S, Herberth G, Takada E, Mücke O, Winter M, Junge KM, Grützmann K, Rolle-Kampczyk U, Wang Q, Lawerenz C, Borte M, Polte T, Schlesner M, Schanne M, Wiemann S, Geörg C, Stunnenberg HG, Plass C, Rippe K, Mizuguchi J, Herrmann C, Eils R, Lehmann I. Bauer T, et al. Among authors: schlesner m. Mol Syst Biol. 2016 Mar 24;12(3):861. doi: 10.15252/msb.20156520. Mol Syst Biol. 2016. PMID: 27013061 Free PMC article.
HilbertCurve: an R/Bioconductor package for high-resolution visualization of genomic data.
Gu Z, Eils R, Schlesner M. Gu Z, et al. Among authors: schlesner m. Bioinformatics. 2016 Aug 1;32(15):2372-4. doi: 10.1093/bioinformatics/btw161. Epub 2016 Mar 24. Bioinformatics. 2016. PMID: 27153599
AVAILABILITY AND IMPLEMENTATION: The HilbertCurve package and documentation are freely available from the Bioconductor project: http://www.bioconductor.org/packages/devel/bioc/html/HilbertCurve.html CONTACT: m.schlesner@dkfz.de SUPPLEMENTARY INFORMATION: Supplementa …
AVAILABILITY AND IMPLEMENTATION: The HilbertCurve package and documentation are freely available from the Bioconductor project: http://www.b …
206 results