title: Corset: enabling differential gene expression analysis for de novo assembled transcriptomes.
abstract: Next generation sequencing has made it possible to perform differential gene expression studies in non-model organisms. For these studies, the need for a reference genome is circumvented by performing de novo assembly on the RNA-seq data. However, transcriptome assembly produces a multitude of contigs, which must be clustered into genes prior to differential gene expression detection. Here we present Corset, a method that hierarchically clusters contigs using shared reads and expression, then summarizes read counts to clusters, ready for statistical testing. Using a range of metrics, we demonstrate that Corset out-performs alternative methods. Corset is available from https://code.google.com/p/corset-project/.
authors: Nadia M
authors: NM
authors: Davidson
authors: Alicia
authors: A
authors: Oshlack
mesh_terms: D000818:Animals; D002642:Chick Embryo; D016000:Cluster Analysis; D006801:Humans; D015233:Models, Statistical; D017423:Sequence Analysis, RNA; D012984:Software; D059467:Transcriptome; D015003:Yeasts / Q000235:genetics*