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Series GSE179026 Query DataSets for GSE179026
Status Public on May 18, 2022
Title Transcriptome data from tomato parthenocarpic mutants lacking Tomato APETALA3 (TAP3)
Organism Solanum lycopersicum
Experiment type Expression profiling by array
Summary 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.
 
Contributor(s) Fukushima A, Nishizawa T, Kamiya K, Kusano M
Citation(s) 35563726
Submission date Jun 28, 2021
Last update date May 20, 2022
Contact name Atsushi Fukushima
E-mail(s) atsushi.fukushima@a.riken.jp
Organization name RIKEN
Department Center for Sustainable Resource Science
Street address 1-7-22 Suehiro, Tsurumi
City Yokohama
ZIP/Postal code 230-0045
Country Japan
 
Platforms (1)
GPL4741 [Tomato] Affymetrix Tomato Genome Array
Samples (39)
GSM5403924 MicroTom-J_-2DAF biological rep1 [SK293]
GSM5403925 MicroTom-J_-2DAF biological rep2 [SK294]
GSM5403926 MicroTom-J_-2DAF biological rep3 [SK295]
This SubSeries is part of SuperSeries:
GSE179122 Transcriptome data from tomato parthenocarpic mutants
Relations
BioProject PRJNA741939

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE179026_RAW.tar 36.1 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table
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