The TomExpress RNA-Seq platform was developed to provide the tomato community with dedicated browser and tools for public RNA-Seq data handling, visualization and mining.
To avoid major biases resulting from the use of different processing methods, all RNA-Seq raw sequence were mapped on a unique tomato reference genome with accurate parameters. Following calculation of the number of counts per gene in each RNA-seq project, the same normalization method was applied to all counts available for the tomato as described in Maza et al.( 2013 ).
TomExpress database has been designed in a way that makes each expression value associated with the corresponding experimental details. This friendly web interface provides versatile data mining tools including output graphics showing charts, heatmaps of hierarchically clustered expression data and identification and visualization of correlation networks of co-regulated gene groups. In addition, the expression patterns in different plant organs and tissues are provided as images suitable for visual and oral presentations.
Project Leader & Initiator
Statistics and Data mining Methods
Public data Deciphering & Sample Annotation
Data analysis and Lead Developer
Data analysis & Web Development
Previous Members of the TomExpress Team
Very first draft developer
In Planta pictures & Design elments
Data analysis & tool development
Marina DIAZ UZQUIANO
The TomExpress platform was developed by the Genomic and Biotechnology of the Fruit laboratory (GBF) , INPT-ENSAT, FRANCE