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A comprehensive comparison between reference-based and ‘de novo’ isoform assembly approaches

2013; Volume: 19; Issue: A Linguagem: Inglês

10.14806/ej.19.a.621

2226-6089

Oscar L. Rodriguez, Juan Carlos Triviño, Rebeca Miñambres, S. Zúñiga, Sonia Santillán, Mayte Gil, Reyes Claramunt, Célia Buades,

RNA Research and Splicing

The reconstruction of the transcriptome can be performed following two different approaches, a reference-based method in which reads are mapped back to a reference genome, and a ‘de novo’ assembly strategy where reads are compared to each other to reconstruct expressed isoforms without the need of using a reference genome. In the present studio we provide a comprehensive comparison between these two transcriptome analysis methodologies for isoforms reconstruction based on genome annotation and isoform expression levels using a Human sample