Project name: Transcriptome data from tomato parthenocarpic mutants lacking Tomato APETALA3 (TAP3)

Description: We investigated the behavior of tomato mutants lacking transcription factors of TAP3, a class B MADS-box gene controlling parthenocarpy. To focus on the early stages of anthesis, ovary samples of MicroTom-J (MT-J) and the mutant at the different stages (e.g., bud, flowering, and after flowering) were collected.Overall design: We conducted three independent hybridizations with the GeneChip® Tomato Genome Array according to the manufacturer's instructions (Affymetrix, http:// www.affymetrix.com). A single biological replicate was utilized in each hybridization. The preprocessing and normalization/summarization of all CEL files were with the Bioconductor (Gentleman et al., 2004) and a robust multi-chip average (RMA) (Bolstad et al., 2003). The quality of GeneChip data was assessed by AFFYPLM package (Bolstad et al., 2005). We used the annotation of each gene in the CSV file Tomato.na32.annot.csv (downloaded on June 2011) released by the Affymetrix.

Data type: Transcriptome or Gene expression

Sample scope: Multiisolate

Relevance: Agricultural

Last updated: 2021-06-28