ArticleNucleic acids research2016
EDGAR 2.0: an enhanced software platform for comparative gene content analyses.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 181 papers.
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Who cites it
181 citing papers in PubMed.
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- Mutation of the gidB gene causes intrinsic streptomycin resistance in Bacillus velezensis.Scientific reports · 2025Article
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- Screening of novel therapeutic targets and chimeric vaccine construction against antibiotic-resistantFrontiers in immunology · 2025Article
- Genotypes and associated traits inFrontiers in microbiology · 2025Article
- Genomic insights into five selected multidrug-resistantFrontiers in microbiology · 2025Article
- Frankia [NiFe] uptake hydrogenases and genome reduction: different lineages of loss.FEMS microbiology ecology · 2024Article
- Immunoinformatics Design of a Multiepitope Vaccine (MEV) TargetingPathogens (Basel, Switzerland) · 2024Article
- Evolution and Competitive Struggles ofInternational journal of molecular sciences · 2024Article
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- Genome analysis and biogeographic distribution of the earliest divergent Frankia clade in the southern hemisphere.FEMS microbiology ecology · 2024Article
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- Methods for Pangenomic Core Detection.Methods in molecular biology (Clifton, N.J.) · 2024Article
121 more citing papers are in PubMed but not listed here.
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The rapidly increasing availability of microbial genome sequences has led to a growing demand for bioinformatics software tools that support the functional analysis based on the comparison of closely related genomes. By utilizing comparative approaches on gene level it is possible to gain insights into the core genes which represent the set of shared features for a set of organisms under study. Vice versa singleton genes can be identified to elucidate the specific properties of an individual genome. Since initial publication, the EDGAR platform has become one of the most established software tools in the field of comparative genomics. Over the last years, the software has been continuously improved and a large number of new analysis features have been added. For the new version, EDGAR 2.0, the gene orthology estimation approach was newly designed and completely re-implemented. Among other new features, EDGAR 2.0 provides extended phylogenetic analysis features like AAI (Average Amino Acid Identity) and ANI (Average Nucleotide Identity) matrices, genome set size statistics and modernized visualizations like interactive synteny plots or Venn diagrams. Thereby, the software supports a quick and user-friendly survey of evolutionary relationships between microbial genomes and simplifies the process of obtaining new biological insights into their differential gene content. All features are offered to the scientific community via a web-based and therefore platform-independent user interface, which allows easy browsing of precomputed datasets. The web server is accessible at http://edgar.computational.bio.
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