Browsing by Author "Dotu, Ivan"

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  • Jungfleisch, Jennifer, 1986-; Nedialkova, Danny D.; Dotu, Ivan; Sloan, Katherine E.; Martínez Bosch, Neus; Brüning, Lukas; Raineri, Emanuele; Navarro Medrano, Pilar; Bohnsack, Markus T.; Leidel, Sebastian; Díez Antón, Juana, 1962- (Cold Spring Harbor Laboratory Press (CSHL Press), 2017)
    The impact of RNA structures in coding sequences (CDS) within mRNAs is poorly understood. Here, we identify a novel and highly conserved mechanism of translational control involving RNA structures within coding sequences ...
  • Garcia-Martin, Juan Antonio; Bayegan, Amir H.; Dotu, Ivan; Clote, Peter (BioMed Central, 2016)
    BACKGROUND: RNA inverse folding is the problem of finding one or more sequences that fold into a user-specified target structure s 0, i.e. whose minimum free energy secondary structure is identical to the target s 0. Here ...
  • Garcia-Martin, Juan Antonio; Dotu, Ivan; Clote, Peter (Oxford University Press, 2015)
    Several algorithms for RNA inverse folding have been used to design synthetic riboswitches, ribozymes and thermoswitches, whose activity has been experimentally validated. The RNAiFold software is unique among approaches ...
  • Dotu, Ivan; Scott I. Adamson; Coleman, Benjamin; Fournier, Cyril; Ricart Altimiras, Emma; Eyras Jiménez, Eduardo; Chuang, Jeffrey H. (Public Library of Science (PLoS), 2018)
    RNA-protein binding is critical to gene regulation, controlling fundamental processes including splicing, translation, localization and stability, and aberrant RNA-protein interactions are known to play a role in a wide ...
  • Pagès Pinós, Amadís; Dotu, Ivan; Pallarès Albanell, Joan; Martí Puig, Eulàlia; Guigó Serra, Roderic; Eyras Jiménez, Eduardo (Oxford University Press, 2018)
    Small non-coding RNAs (sncRNAs) are highly abundant molecules that regulate essential cellular processes and are classified according to sequence and structure. Here we argue that read profiles from size-selected RNA ...
  • Francisco-Velilla, Rosario; Fernández-Chamorro, Javier; Dotu, Ivan; Martinez Salas, Encarnación (Oxford University Press, 2018)
    Gemin5 is a predominantly cytoplasmic protein that downregulates translation, beyond controlling snRNPs assembly. The C-terminal region harbors a non-canonical RNA-binding site consisting of two domains, RBS1 and RBS2, ...