AGOUTI: improving genome assembly and annotation using transcriptome data

BioRxiv : the Preprint Server for Biology
Simo V ZhangMatthew W Hahn

Abstract

Current genome assemblies consist of thousands of contigs. These incomplete and fragmented assemblies lead to errors in gene identification, such that single genes spread across multiple contigs are annotated as separate gene models. We present AGOUTI (Annotated Genome Optimization Using Transcriptome Information), a tool that uses RNA-seq data to simultaneously combine contigs into scaffolds and fragmented gene models into single models. We show that AGOUTI improves both the contiguity of genome assemblies and the accuracy of gene annotation, providing updated versions of each as output.

Related Concepts

Drug Usage
Genome
Genes
Genome Assembly Sequence
probe gene fragment
Gene Annotation
Transcriptome
Agouti protein
Genus Agouti
Molecular Assembly/Self Assembly

Related Feeds

BioRxiv & MedRxiv Preprints

BioRxiv and MedRxiv are the preprint servers for biology and health sciences respectively, operated by Cold Spring Harbor Laboratory. Here are the latest preprint articles (which are not peer-reviewed) from BioRxiv and MedRxiv.