SGN

From MetaBase

The Sol Genomics Network (SGN) is a clade oriented, community driven database for the Solanaceae.

Contents 1 Database Description 2 Authors 2.1 Contact Email 3 External Links 4 Publications

[edit] Database Description

The Sol Genomics Network is a Clade Oriented Database (COD) containing genomic, genetic, phenotypic and taxonomic information for species in the Euasterid clade, including the families Solanaceae (e.g. tomato, potato, eggplant, pepper, petunia) and Rubiaceae (coffee). Genomic information is presented in a comparative format and tied to the fully-sequenced Arabidopsis genome. SGN is also one of the centers involved in tomato genome sequencing.

SGN has extensive community curation tools. Researchers from the community are assigned to loci as "locus editors", who can log in to add and edit locus information, such as descriptions, literature references, mutant images, figures, and so forth.

SGN has also produced a number of tools, such as a comparative mapviewer, a alignment and tree browser for phylogenetic work, and a network browser to browse networks of loci.

[edit] Authors

• Mueller LA
• Menda N
• Tecle I
• Bombarely A
• Buels R
• York T
• Pujar A
• Mills A
• Gosselin J

[edit] Contact Email

sgn-feedback@sgn.cornell.edu

[edit] External Links

• sgn.cornell.edu

[edit] Publications

• Menda N, Buels RM, Tecle I, Mueller LA. (2008). A community-based annotation framework for linking solanaceae genomes with phenomes. Plant Physiol. 147(4):1788-99

• Mueller LA, Solow TH, Taylor N, Skwarecki B, Buels R, Binns J, Lin C, Wright MH, Ahrens R, Wang Y, Herbst EV, Keyder ER, Menda N, Zamir D, Tanksley SD. (2005). The SOL Genomics Network: a comparative resource for Solanaceae biology and beyond.Plant Physiol. 138: 1310-7.

• Mueller LA, Mills AA, Skwarecki B, Buels RM, Menda N, Tanksley SD. (2008). The SGN comparative map viewer. Bioinformatics. 2008 Feb 1;24(3):422-3

• Lin C, Mueller LA, Mc Carthy J, Crouzillat D, Pétiard V, Tanksley SD. (2005). Coffee and tomato share common gene repertoires as revealed by deep sequencing of seed and cherry transcripts. Theor Appl Genet. 2005 Dec;112(1):114-30.

• Wu F, Mueller LA, Crouzillat D, Pétiard V, Tanksley SD. (2006). Combining bioinformatics and phylogenetics to identify large sets of single-copy orthologous genes (COSII) for comparative, evolutionary and systematic studies: a test case in the euasterid plant clade. Genetics. 174(3):1407-20.

PubMed