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Finding instances of riboswitches and ribozymes by homology search of structured RNA with infernal

El Korbi, Amell; Ouellet, Jonathan; Naghdi, Mohammad Reza; Perreault, Jonathan (2014). Finding instances of riboswitches and ribozymes by homology search of structured RNA with infernal In: Therapeutic Applications of Ribozymes and Riboswitches: Methods and Protocols. Methods in Molecular Biology, 1103 (1103). Springer, New York, p. 113-126.

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Résumé

In the genomics era, computational tools are essential to extract information from sequences and annotate them to allow easy access to genes. Fortunately, many of these tools are now part of standard pipelines. As a consequence, a cornucopia of genomic features is available in multiple databases. Nevertheless, as novel genomes are sequenced and new structured RNAs are discovered, homology searches and additional analyses need to be performed. In this chapter, we propose simple ways of finding instances of riboswitches and ribozymes in databases or in unannotated genomes, as well as ways of finding variants that deviate from the typical consensus.

Type de document:
Mots-clés libres: ncRNA; Noncoding RNA; Infernal; Covariation; Homology search; RNA structure; Secondary structure; Riboswitches; Ribozymes
Centre: Centre INRS-Institut Armand Frappier
Date de dépôt: 26 mai 2017 14:36
Dernière modification: 26 mai 2017 14:36
URI: http://espace.inrs.ca/id/eprint/3036

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