Microarray data warehouse - Archive of tomato microarray experiments following MIAME guidelines | Data submission

Tomato microarrays: probe information | extract probe annotations | extract probe sequences | blast against probe sequences | probe functional classification | GO term enrichment analysis | download probe annotations |

Analyzed microarray data: probe expression | gene coexpression search | array data analysis tools (identify enriched GO terms and altered pathways) | download analyzed array results

Digital expression data

Metabolite: compounds/metabolites | pennellii lines | hirsutum lines | correlation of metabolite and gene expression profiles

small RNAs: search small RNAs | search candidate miRNAs | miRNA target prediction | siRNA viewer | highly abundant sRNAs

ordering: price information | order cDNA, BAC or fosmid clones | order TOM2 oligo arrays | order BAC library filters

TFGD paper - Oct. 2010
A paper describing the Tomato Functional Genomics Database (TFGD) was published on Nucleic Acids Research

siRNA viewer - Aug. 2010
Tomato small RNAs were aligned to tomato unigenes and a viewer of these alignments on each unigene was developed.

Tomato small RNA re-processed - Aug. 2010
Tomato small RNAs were re-processed using the recently released tomato genome sequences (v2.30). Details...

More tomato array data collected - March 2010
All tomato array datasets from GEO and ArrayExpress were collected, analyzed and deposited in our database. The analyzed results of these datasets were integrated into tools and queries in the database. Gene coexpression was also updated by including these new datasets.

Tomato miRNA identification updated - Dec. 2009
Tomato small RNAs were re-analyzed using the tomato shotgun genome sequence. An updated pipeline was used to identify tomato candidate miRNAs. Details...

Tomato Shotgun Genome Sequence prereleased - Dec. 2009
A prerelease of the tomato shotgun genome sequence is available at SGN. Details...

Update on tomato small RNAs - July 2009
Around 14.9 million tomato small RNAs representing approximately five million unique small RNAs were downloaded from the small RNA website from Dr. Blake Meyer's lab at University of Delaware. These small RNAs were processed and included in the database. Explore...