GenePRIMP: a gene prediction improvement pipeline for prokaryotic genomes

By Amrita Pati, Natalia N. Ivanova, Natalia Mikhailova, Galina Ovchinnikova, Sean D. Hooper, A. Lykidis, Nikos Kyrpides. Nature Methods, 2010

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Genome Majority Vote Improves Gene Predictions (2011, unknown): “RAST and GenePRIMP both exploit archived material, in which the extent of errors is unknown.”
Ortholog identification in the presence of domain architecture rearrangement (2011, background): “Gene model errors are quite common in eukaryote genomes due to the presence of introns in many genes, but are also found in bacterial genomes ( 10% of bacterial genes and a higher fraction of eukaryotic genes have gene model errors) [67].”
IMG: the integrated microbial genomes database and comparative analysis system (2011, methodology): “This project relies on a gene quality assessment pipeline, GenePRIMP (34) that allows performing automated correction of gene models including insertion of missed genes, extension of ‘short’ genes and identification of putative pseudogenes.”