Dalakouras A, Tzanopoulou M, Tsagris M, Wassenegger M, Kalantidis K. Hairpin transcription does not necessarily lead to efficient triggering of the RNAi pathway. Transgenic Res. 2010 Jun 26. [Epub ahead of print]
Silencing RNAs: organisers and coordinators of complexity in eukaryotic organisms
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Hairpin transcription does not necessarily lead to efficient triggering of the RNAi pathway.
SIROCCO Partner Author: Wassenegger M
Natural allelic variation underlying a major fitness trade-off in Arabidopsis thaliana.
Todesco M, Balasubramanian S, Hu TT, Traw MB, Horton M, Epple P, Kuhns C, Sureshkumar S, Schwartz C, Lanz C, Laitinen RA, Huang Y, Chory J, Lipka V, Borevitz JO, Dangl JL, Bergelson J, Nordborg M, Weigel D. Natural allelic variation underlying a major fitness trade-off in Arabidopsis thaliana. Nature. 2010 Jun 3;465(7298):632-6.
SIROCCO Partner Author: Weigel D
Utilization of unlocked nucleic acid (UNA) to enhance siRNA performance in vitro and in vivo.
Laursen MB, Pakula MM, Gao S, Fluiter K, Mook OR, Baas F, Langklaer N, Wengel SL, Wengel J, Kjems J, Bramsen JB. Utilization of unlocked nucleic acid (UNA) to enhance siRNA performance in vitro and in vivo. Mol Biosyst. 2010 May 10;6(5):862-70. Epub 2010 Feb 9.
SIROCCO Partner Author: Kjems J
The C-terminal alpha-alpha superhelix of Pat is required for mRNA decapping in metazoa.
Braun JE, Tritschler F, Haas G, Igreja C, Truffault V, Weichenrieder O, Izaurralde E. The C-terminal alpha-alpha superhelix of Pat is required for mRNA decapping in metazoa. EMBO J. 2010 Jun 11. [Epub ahead of print]
SIROCCO Partner Author: Izaurralde E
MicroRNAs and gene regulatory networks: managing the impact of noise in biological systems.
Herranz H, Cohen SM. MicroRNAs and gene regulatory networks: managing the impact of noise in biological systems. Genes Dev. 2010 Jul 1;24(13):1339-44. Review.
SIROCCO Partner Author: Cohen SM
A myriad of miRNA variants in control and Huntington’s disease brain regions detected by massively parallel sequencing.
Martí E, Pantano L, Bañez-Coronel M, Llorens F, Miñones-Moyano E, Porta S, Sumoy L, Ferrer I, Estivill X. A myriad of miRNA variants in control and Huntington’s disease brain regions detected by massively parallel sequencing. Nucleic Acids Res. 2010 Jun 30. [Epub ahead of print]
SIROCCO Partner Author: Estivill X
miR-375 maintains normal pancreatic alpha- and beta-cell mass.
Poy MN, Hausser J, Trajkovski M, Braun M, Collins S, Rorsman P, Zavolan M, Stoffel M. miR-375 maintains normal pancreatic alpha- and beta-cell mass. Proc Natl Acad Sci U S A. 2009 Apr 7;106(14):5813-8. Epub 2009 Mar 16.
SIROCCO Partner Author: Stoffel M
Comprehensive reanalysis of transcription factor knockout expression data in Saccharomyces cerevisiae reveals many new targets.
Reimand J, Vaquerizas JM, Todd AE, Vilo J, Luscombe NM. Comprehensive reanalysis of transcription factor knockout expression data in Saccharomyces cerevisiae reveals many new targets. Nucleic Acids Res. 2010 Apr 12. [Epub ahead of print]
SIROCCO Partner Author: Vilo J
Malignant germ cell tumors display common microRNA profiles resulting in global changes in expression of messenger RNA targets.
Palmer RD, Murray MJ, Saini HK, van Dongen S, Abreu-Goodger C, Muralidhar B, Pett MR, Thornton CM, Nicholson JC, Enright AJ, Coleman N; Children’s Cancer and Leukaemia Group. Malignant germ cell tumors display common microRNA profiles resulting in global changes in expression of messenger RNA targets. Cancer Res. 2010 Apr 1;70(7):2911-23. Epub 2010 Mar 23.
SIROCCO Partner Author: Enright AJ
MapMi: automated mapping of microRNA loci.
Guerra-Assunção JA, Enright AJ MapMi: automated mapping of microRNA loci. BMC Bioinformatics. 2010 Mar 16;11:133.
MapMi is a tool designed to locate miRNA precursor sequences in existing genomic sequences (e.g Ensembl and Ensembl Metazoa), using potential mature miRNA sequences as input.
After searching the genome for the provided mature sequences, these hits are extended and classified taking into account major structural properties of known miRNA precursors.
MapMi uses Bowtie and RNAfold third-party tools. Please check their websites for more details.
For more informations about the methods behind MapMi, please check the references section
SIROCCO Partner Author: bioinformatics, Enright AJ
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