GeneValidator: identify problems with protein-coding gene predictions

Integration of mapped RNA-Seq reads into automatic training of eukaryotic gene finding algorithm

(2014) Alexandre Lomsadze et al.   NUCLEIC ACIDS RESEARCH

Social insect genomes exhibit dramatic evolution in gene composition and regulation while preserving regulatory features linked to sociality

(2013) D. F. Simola et al.   GENOME RESEARCH

ASPic-GeneID: A Lightweight Pipeline for Gene Prediction and Alternative Isoforms Detection

(2013) Tyler Alioto et al.   Biomed Research International

Biogem: an effective tool-based approach for scaling up open source software development in bioinformatics

(2012) R. J. P. Bonnal et al.   BIOINFORMATICS

A beginner's guide to eukaryotic genome annotation

(2012) Mark Yandell et al.   NATURE REVIEWS GENETICS

Evaluating High-Throughput Ab Initio Gene Finders to Discover Proteins Encoded in Eukaryotic Pathogen Genomes Missed by Laboratory Techniques

(2012) Stephen J. Goodswen et al.   PLoS One

Visualization and quality assessment of de novo genome assemblies

(2011) Oksana Riba-Grognuz et al.   BIOINFORMATICS

A novel hybrid gene prediction method employing protein multiple sequence alignments

(2011) Oliver Keller et al.   BIOINFORMATICS

Visualizing genomes: techniques and challenges

(2010) Cydney B Nielsen et al.   NATURE METHODS

Quantitative measures for the management and comparison of annotated genomes

(2009) Karen Eilbeck et al.   BMC BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

GenBank

(2009) Dennis A. Benson et al.   NUCLEIC ACIDS RESEARCH

Using native and syntenically mapped cDNA alignments to improve de novo gene finding

(2008) Mario Stanke et al.   BIOINFORMATICS

The future of biocuration

(2008) Doug Howe et al.   NATURE