GANESH: Software for Customized Annotation of Genome Regions | Zendy

Derek Huntley | Zendy; Holger Hummerich | Zendy; Damian Smedley | Zendy; Sasivimol Kittivoravitkul | Zendy; Mark I. McCarthy | Zendy; Peter Little | Zendy; Marek Sergot | Zendy

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GANESH: Software for Customized Annotation of Genome Regions

Author(s) -

Derek Huntley,

Holger Hummerich,

Damian Smedley,

Sasivimol Kittivoravitkul,

Mark I. McCarthy,

Peter Little,

Marek Sergot

Publication year - 2003

Publication title -

genome research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.556

H-Index - 297

eISSN - 1549-5469

pISSN - 1088-9051

DOI - 10.1101/gr.698103

Subject(s) - annotation , java , construct (python library) , computer science , genome , software , relational database , set (abstract data type) , database , graphical user interface , interface (matter) , biology , component (thermodynamics) , java applet , programming language , genetics , artificial intelligence , operating system , gene , thermodynamics , physics , bubble , maximum bubble pressure method

GANESH is a software package designed to support the genetic analysis of regions of human and other genomes. It provides a set of components that may be assembled to construct a self-updating database of DNA sequence, mapping data, and annotations of possible genome features. Once one or more remote sources of data for the target region have been identified, all sequences for that region are downloaded, assimilated, and subjected to a (configurable) set of standard database-searching and genome-analysis packages. The results are stored in compressed form in a relational database, and are updated automatically on a regular schedule so that they are always immediately available in their most up-to-date versions. A Java front-end, executed as a stand alone application or web applet, provides a graphical interface for navigating the database and for viewing the annotations. There are facilities for importing and exporting data in the format of the Distributed Annotation System (DAS), enabling a GANESH database to be used as a component of a DAS configuration. The system has been used to construct databases for about a dozen regions of human chromosomes and for three regions of mouse chromosomes.

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