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Next-generation sequencing of the Chinese hamster ovary microRNA transcriptome: Identification, annotation and profiling of microRNAs as targets for cellular engineering.
Hackl M, Jakobi T, Blom J, Doppmeier D, Brinkrolf K, Szczepanowski R, Bernhart SH, Höner Zu Siederdissen C, Bort JA, Wieser M, Kunert R, Jeffs S, Hofacker IL, Goesmann A, Pühler A, Borth N, Grillari J. Hackl M, et al. Among authors: hofacker il. J Biotechnol. 2011 Apr 20;153(1-2):62-75. doi: 10.1016/j.jbiotec.2011.02.011. Epub 2011 Mar 30. J Biotechnol. 2011. PMID: 21392545 Free PMC article.
Alignment of RNA base pairing probability matrices.
Hofacker IL, Bernhart SH, Stadler PF. Hofacker IL, et al. Bioinformatics. 2004 Sep 22;20(14):2222-7. doi: 10.1093/bioinformatics/bth229. Epub 2004 Apr 8. Bioinformatics. 2004. PMID: 15073017
Local RNA base pairing probabilities in large sequences.
Bernhart SH, Hofacker IL, Stadler PF. Bernhart SH, et al. Among authors: hofacker il. Bioinformatics. 2006 Mar 1;22(5):614-5. doi: 10.1093/bioinformatics/btk014. Epub 2005 Dec 20. Bioinformatics. 2006. PMID: 16368769
Thermodynamics of RNA-RNA binding.
Mückstein U, Tafer H, Hackermüller J, Bernhart SH, Stadler PF, Hofacker IL. Mückstein U, et al. Among authors: hofacker il. Bioinformatics. 2006 May 15;22(10):1177-82. doi: 10.1093/bioinformatics/btl024. Epub 2006 Jan 29. Bioinformatics. 2006. PMID: 16446276
Partition function and base pairing probabilities of RNA heterodimers.
Bernhart SH, Tafer H, Mückstein U, Flamm C, Stadler PF, Hofacker IL. Bernhart SH, et al. Among authors: hofacker il. Algorithms Mol Biol. 2006 Mar 16;1(1):3. doi: 10.1186/1748-7188-1-3. Algorithms Mol Biol. 2006. PMID: 16722605 Free PMC article.
RNAs everywhere: genome-wide annotation of structured RNAs.
Athanasius F Bompfünewerer Consortium; Backofen R, Bernhart SH, Flamm C, Fried C, Fritzsch G, Hackermüller J, Hertel J, Hofacker IL, Missal K, Mosig A, Prohaska SJ, Rose D, Stadler PF, Tanzer A, Washietl S, Will S. Athanasius F Bompfünewerer Consortium, et al. Among authors: hofacker il. J Exp Zool B Mol Dev Evol. 2007 Jan 15;308(1):1-25. doi: 10.1002/jez.b.21130. J Exp Zool B Mol Dev Evol. 2007. PMID: 17171697 Review.
Variations on RNA folding and alignment: lessons from Benasque.
Bompfünewerer AF, Backofen R, Bernhart SH, Hertel J, Hofacker IL, Stadler PF, Will S. Bompfünewerer AF, et al. Among authors: hofacker il. J Math Biol. 2008 Jan;56(1-2):129-44. doi: 10.1007/s00285-007-0107-5. Epub 2007 Jul 5. J Math Biol. 2008. PMID: 17611759
Invertebrate 7SK snRNAs.
Gruber AR, Koper-Emde D, Marz M, Tafer H, Bernhart S, Obernosterer G, Mosig A, Hofacker IL, Stadler PF, Benecke BJ. Gruber AR, et al. Among authors: hofacker il. J Mol Evol. 2008 Feb;66(2):107-15. doi: 10.1007/s00239-007-9052-6. Epub 2008 Jan 12. J Mol Evol. 2008. PMID: 18193315 Free PMC article.
159 results