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Year Number of Results
2008 1
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2011 1
2015 1
2017 3
2018 2
2019 2
2020 1
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Strategies for analyzing bisulfite sequencing data.
Wreczycka K, Gosdschan A, Yusuf D, Grüning B, Assenov Y, Akalin A. Wreczycka K, et al. Among authors: yusuf d. J Biotechnol. 2017 Nov 10;261:105-115. doi: 10.1016/j.jbiotec.2017.08.007. Epub 2017 Aug 16. J Biotechnol. 2017. PMID: 28822795 Free article. Review.
Deciphering human ribonucleoprotein regulatory networks.
Mukherjee N, Wessels HH, Lebedeva S, Sajek M, Ghanbari M, Garzia A, Munteanu A, Yusuf D, Farazi T, Hoell JI, Akat KM, Akalin A, Tuschl T, Ohler U. Mukherjee N, et al. Among authors: yusuf d. Nucleic Acids Res. 2019 Jan 25;47(2):570-581. doi: 10.1093/nar/gky1185. Nucleic Acids Res. 2019. PMID: 30517751 Free PMC article.
Community-Driven Data Analysis Training for Biology.
Batut B, Hiltemann S, Bagnacani A, Baker D, Bhardwaj V, Blank C, Bretaudeau A, Brillet-Guéguen L, Čech M, Chilton J, Clements D, Doppelt-Azeroual O, Erxleben A, Freeberg MA, Gladman S, Hoogstrate Y, Hotz HR, Houwaart T, Jagtap P, Larivière D, Le Corguillé G, Manke T, Mareuil F, Ramírez F, Ryan D, Sigloch FC, Soranzo N, Wolff J, Videm P, Wolfien M, Wubuli A, Yusuf D; Galaxy Training Network, Taylor J, Backofen R, Nekrutenko A, Grüning B. Batut B, et al. Among authors: yusuf d. Cell Syst. 2018 Jun 27;6(6):752-758.e1. doi: 10.1016/j.cels.2018.05.012. Cell Syst. 2018. PMID: 29953864 Free PMC article.
Reproducible inference of transcription factor footprints in ATAC-seq and DNase-seq datasets using protocol-specific bias modeling.
Karabacak Calviello A, Hirsekorn A, Wurmus R, Yusuf D, Ohler U. Karabacak Calviello A, et al. Among authors: yusuf d. Genome Biol. 2019 Feb 21;20(1):42. doi: 10.1186/s13059-019-1654-y. Genome Biol. 2019. PMID: 30791920 Free PMC article.
Small RNA profiling of low biomass samples: identification and removal of contaminants.
Heintz-Buschart A, Yusuf D, Kaysen A, Etheridge A, Fritz JV, May P, de Beaufort C, Upadhyaya BB, Ghosal A, Galas DJ, Wilmes P. Heintz-Buschart A, et al. Among authors: yusuf d. BMC Biol. 2018 May 14;16(1):52. doi: 10.1186/s12915-018-0522-7. BMC Biol. 2018. PMID: 29759067 Free PMC article.
The extracellular RNA complement of Escherichia coli.
Ghosal A, Upadhyaya BB, Fritz JV, Heintz-Buschart A, Desai MS, Yusuf D, Huang D, Baumuratov A, Wang K, Galas D, Wilmes P. Ghosal A, et al. Among authors: yusuf d. Microbiologyopen. 2015 Apr;4(2):252-266. doi: 10.1002/mbo3.235. Epub 2015 Jan 21. Microbiologyopen. 2015. PMID: 25611733 Free PMC article.
Temporospatial distribution and transcriptional profile of retinal microglia in the oxygen-induced retinopathy mouse model.
Boeck M, Thien A, Wolf J, Hagemeyer N, Laich Y, Yusuf D, Backofen R, Zhang P, Boneva S, Stahl A, Hilgendorf I, Agostini H, Prinz M, Wieghofer P, Schlunck G, Schlecht A, Lange C. Boeck M, et al. Among authors: yusuf d. Glia. 2020 Sep;68(9):1859-1873. doi: 10.1002/glia.23810. Epub 2020 Mar 9. Glia. 2020. PMID: 32150307
RCAS: an RNA centric annotation system for transcriptome-wide regions of interest.
Uyar B, Yusuf D, Wurmus R, Rajewsky N, Ohler U, Akalin A. Uyar B, et al. Among authors: yusuf d. Nucleic Acids Res. 2017 Jun 2;45(10):e91. doi: 10.1093/nar/gkx120. Nucleic Acids Res. 2017. PMID: 28334930 Free PMC article.
The RNA workbench: best practices for RNA and high-throughput sequencing bioinformatics in Galaxy.
Grüning BA, Fallmann J, Yusuf D, Will S, Erxleben A, Eggenhofer F, Houwaart T, Batut B, Videm P, Bagnacani A, Wolfien M, Lott SC, Hoogstrate Y, Hess WR, Wolkenhauer O, Hoffmann S, Akalin A, Ohler U, Stadler PF, Backofen R. Grüning BA, et al. Among authors: yusuf d. Nucleic Acids Res. 2017 Jul 3;45(W1):W560-W566. doi: 10.1093/nar/gkx409. Nucleic Acids Res. 2017. PMID: 28582575 Free PMC article.
Animal snoRNAs and scaRNAs with exceptional structures.
Marz M, Gruber AR, Höner Zu Siederdissen C, Amman F, Badelt S, Bartschat S, Bernhart SH, Beyer W, Kehr S, Lorenz R, Tanzer A, Yusuf D, Tafer H, Hofacker IL, Stadler PF. Marz M, et al. Among authors: yusuf d. RNA Biol. 2011 Nov-Dec;8(6):938-46. doi: 10.4161/rna.8.6.16603. Epub 2011 Nov 1. RNA Biol. 2011. PMID: 21955586 Free PMC article.
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