All databases

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EU-SOL Germplasm / Phenotype database (BreeDB)

This site provides an interface to data of diverse germplasm and populations tested within this project. Additionally, a set of bioinformatics tools are offered to perform a diverse set of analysis methods aimed at identifying variation of the data stored in this database.

EUSOL tomato genome database

August 2010: Pre-release VERSION 2.30 of the assembled draft genome sequence of Solanum lycopersicum cv. Heinz 1706 available This tomato genome database is still under development. Currently, it only contains PRELIMINARY data which is mainly useful for the tomato genome sequencing consortium. The annotations presented here (ITAG v1.0) are NOT yet in a final state. More data will be included in the near future.

Isola - an italian solanaceae genomics resource

ISOL@ is currently organized into two main levels: the genome and the expression levels. The cornerstone of the genome level is represented by the tomato genome draft sequences. The founding elements of the expression level are the Solanaceae EST collections and the oligonucleotide probe-sets which have been generated for the production of the tomato expression microarrays. A nonstop crosstalk between the levels is based on the data source sharing and on the integration of the information which belongs to the respective under parts. Each level can be independently accessed through specific Web interfaces which allow user-driven data investigation.

EUSOL RT PCR Transcription factor expression

Expression data in 11 tissues on a set of transcription factors derived by RT PCR

Tomato Expression Database (Cornell/NSF)

Tomato Expression Database is part of the Tomato Genome Project funded by the National Science Foundation (NSF). It includes the tomato microarray data warehouse, tomato microarray expression data and tomato digital expression data.

SOLESTdb (Unina)

This database has been designed to manage and to explore the huge amount of EST reads from 14 Solanaceae and 2 Rubiaceae species. The SOLEST database is constructed by first clustering (EST reads are searched pairwise against each other and grouped into clusters based on shared sequence similarity), then assembling EST reads to produce tentative consensus sequences (TCs) and singletons (sESTs). The total number of unique transcripts found are annotated and classified according to their biological functions.

EU-SOL microarray database (INRA Bordeaux)

The EU-SOL microarray database based on BASE will be available from January 2008 to project members.

EU-SOL proteomics database (INRA Avignon)

INRA-Avignon has chosen PROTICdb to manage proteomics data and results. This tool offers many features to record meta-data about each step of proteomic experiments and these LIMS features fulfill Eu-Sol requirements for data tracability. Some proteomics data are available on the servers of INRA Avignon Centre (http://www.avignon.inra.fr/solstis).

SGN (Cornell)

The SOL Genomics Network is a Clade Oriented Database (COD) containing genomic, genetic 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.

Golm Metabolome Database

 

Metware

Metware is a data warehouse for metabolomics data developed in EU-SOL by PRI.

UTILLdb

URGV TILLING Platform with two collections of mutants for Pea and Tomato

LycoTILL

LycoTILL is an interactive and evolving database which allows search on-line of images and phenotype data of the EMS tomato (cv Red Setter) mutant collection which can be used for both forward and reverse (TILLING) genetic studies.

Wageningen UR Plant Breeding hosts european solgenomics.net mirror

An mirror of the solgenomics network database is now mirrored at Wageningen UR Plant Breeding. The mirror can be accessed at http://solgenomics.wur.nl

LycoTILL tomato mutant database

LycoTILL is an interactive and evolving database which allows search on-line of images and phenotype data of an EMS tomato (cv Red Setter) mutant collection. A large variability of mutant phenotypes, visually observed at both vegetative and reproductive stages of tomato M2 plants, are reported and available for the research community. The database is managed and hosted at Metapontum Agrobios research center. At present LycoTILL contains essentially phenotype data but it has been structured for being interrogated, in the next future, for molecular data generated by the TILLING analysis.

Solgenomics.net (SGN) mirror at WUR

A mirror of the solgenomics network database is now mirrored at Wageningen UR Plant Breeding.

SGN tomato genome resources

Resources for the tomato genome at Solgenomics Network, including access to sequences (BACs, contigs, scaffolds, different assembly versions) and annotation, including the Gbrowse genome browser.

BOGAS genome annotation editor

ITAG aims at providing the best possible genome annotation. Still, errors can occur. The BOGAS interface offers preprocessed data and access to tools that allow experts to correct the predictions. These include JalView and GenomeView. Contact beg-bogas[at]psb.ugent.be for a login.

Potato genome Gbrowse

A Gbrowse installation for the Solanum phureja DM1-3 516R44 (CIP801092) Genome and annotation by the Potato Genome Sequencing Consortium.

SGN Gbrowse for ITAG v2

 

SOLstIS - the tomato proteome database of INRA

Access to ProticDB and associated tools, e.g. web services. PROTICdb is a tool developed by INRA that we have chosen for storing and processing our proteomic data. We are developing a proteomic approach to the genetic analysis of tomato organoleptic and nutritional quality. Most of our experiments combine two-dimensional polyacrylamide gel electrophoresis (2-D PAGE) for protein separation and mass spectrometry (MS) for protein identification. With this tool you will access data from our experiments as they are recorded in our lab database. You can launch queries which return sets of data or interact with the images of our E2D gels.