Universität zu Köln

Blom, Jochen, Kreis, Julian, Spaenig, Sebastian, Juhre, Tobias, Bertelli, Claire ORCID: 0000-0003-0550-8981, Ernst, Corinna and Goesmann, Alexander ORCID: 0000-0002-7086-2568 (2016). EDGAR 2.0: an enhanced software platform for comparative gene content analyses. Nucleic Acids Res., 44 (W1). S. W22 - 7. OXFORD: OXFORD UNIV PRESS. ISSN 1362-4962

Full text not available from this repository.

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.

Item Type:	Journal Article
Creators:	Creators Email ORCID ORCID Put Code Blom, Jochen UNSPECIFIED UNSPECIFIED UNSPECIFIED Kreis, Julian UNSPECIFIED UNSPECIFIED UNSPECIFIED Spaenig, Sebastian UNSPECIFIED UNSPECIFIED UNSPECIFIED Juhre, Tobias UNSPECIFIED UNSPECIFIED UNSPECIFIED Bertelli, Claire UNSPECIFIED orcid.org/0000-0003-0550-8981 UNSPECIFIED Ernst, Corinna UNSPECIFIED UNSPECIFIED UNSPECIFIED Goesmann, Alexander UNSPECIFIED orcid.org/0000-0002-7086-2568 UNSPECIFIED
URN:	urn:nbn:de:hbz:38-270017
DOI:	10.1093/nar/gkw255
Journal or Publication Title:	Nucleic Acids Res.
Volume:	44
Number:	W1
Page Range:	S. W22 - 7
Date:	2016
Publisher:	OXFORD UNIV PRESS
Place of Publication:	OXFORD
ISSN:	1362-4962
Language:	English
Faculty:	Unspecified
Divisions:	Unspecified
Subjects:	no entry
Uncontrolled Keywords:	Keywords Language SPECIES DEFINITION; SEQUENCE; BACTERIAL; ALIGNMENT; DATABASE Multiple languages Biochemistry & Molecular Biology Multiple languages
Refereed:	Yes
URI:	http://kups.ub.uni-koeln.de/id/eprint/27001