Intended Audiences:
Bioinformaticians, Bench Scientists |
Area of Focus:
Genome Annotation |
Primary Workspace:
ICR |
Product Description:
GeneConnect is a caBIGTM mapping service that makes this interoperability possible by interlinking approved genomic identifiers. These include: Ensembl Gene ID; Ensembl Transcript ID; Ensembl Protein ID; Entrez Gene ID; UniGene ID; GenBank mRNA Accession Number; GenBank Protein Accession Number; RefSeq mRNA Accession Number; RefSeq Protein Accession Number; and UniProtKB Primary Accession Number.
To interlink all of these identifiers, database annotations (either direct or inferred) and an alignment engine have been used to construct pair wise connections, and then all-to-all relationships have been calculated by traversing all possible combinations of edges in the graph using every node as the starting point. For each query, composed of one or more input identifiers and a set of paths that may be traversed, the Path Score and Frequency are calculated. The GeneConnect application is a independent component with following modules GeneConnect server; Web application; XML-RPC server |
Current Version Number: Version 1.0 |
Release Date of Current Version:
02/2007 |
Currently caGrid Enabled?
Yes
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caBIG™ Compatibility Level:
Not yet determined
Learn more about compatibility levels |
Tool Maturity Assessment:
Stable Release (Adoption in Progress) |
Installation Level:
Advanced - technical team required for installation
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Architecture Type:
Desktop Application, Web Application - Remote application with data uploads/downloads through web interface, Enterprise System/Infrastructure - Server/Network Dependent |
System Requirements:
Operating Systems: Solaris 9 ; Redhat Enterprise Linux AS 4.0 Database: Oracle 10; Oracle 9i Browsers: Windows Internet Explorer 6.0; MAC Safari 2.0.3 Platform: Java 1.4 High performance machines/servers with support of Linux clusters The applications is a independent component with following modules GeneConnect server; Web application; XML-RPC server
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