The Sol Genomics Network (SGN)—from genotype to phenotype to breeding

By Noé Fernández-Pozo, Naama Menda, Jeremy D. Edwards, Surya Saha, I. Tecle, S. Strickler, A. Bombarely, Thomas Fischer-York, Anuradha Pujar, Hartmut Foerster and 2 more. Nucleic Acids Res., 2014

628 citations recorded by the source corpus.

The Sol Genomics Network (SGN, http://solgenomics.net) is a web portal with genomic and phenotypic data, and analysis tools for the Solanaceae family and close relatives. SGN hosts whole genome data for an increasing number of Solanaceae family members including tomato, potato, pepper, eggplant, tobacco and Nicotiana benthamiana. The database also stores loci and phenotype data, which researchers can upload and edit with user-friendly web interfaces. Tools such as BLAST, GBrowse and JBrowse for browsing genomes, expression and map data viewers, a locus community annotation system and a QTL analysis tools are available. A new tool was recently implemented to improve Virus-Induced Gene Silencing (VIGS) constructs called the SGN VIGS tool. With the growing genomic and phenotypic data in the database, SGN is now advancing to develop new web-based breeding tools and implement the code and database structure for other species or clade-specific databases.

Subfields: Plant Science

View Paper: https://www.semanticscholar.org/paper/bf9d965752013508f7ebb8db3717752f4ec8dc82

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Plant Science

Citations in the corpus

An improved de novo assembly and annotation of the tomato reference genome using single-molecule sequencing, Hi-C proximity ligation and optical maps (2019, background): “Repeat Identification and Classification The REPET (Flutre et al. 2011) pipeline identified 71.77% of the SL4.”
JBrowse: a dynamic web platform for genome visualization and analysis (2016, background): “Sites that use JBrowse (or JBrowse-based tools) span plant genomics [19–25], animal genomics [12, 26–29], and disease-related databases [30–34].”