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Series GSE41206 Query DataSets for GSE41206
Status Public on Sep 27, 2012
Title Grape flesh and skin ripening transcriptomic profiling
Organism Vitis vinifera
Experiment type Expression profiling by array
Summary The experiment was aimed at describing similarities and differences between grapevine flesh and skin ripening at the transcriptome level. Transcriptional profiles throughout flesh and skin ripening were followed in three biological replicas during two consecutive growing seasons in a table grape cultivar ‘Muscat Hamburg’. Berries were weekly picked off bunches (one bunch per vine from each selected vine) from june to august. For each sampling, berries were classified in five ripening stages based on monitoring developmental stages instead of a simple chronological sampling. They corresponded to pre-véraison (P), 50% véraison (V1), 100% véraison (V2), ripe 1 (R1), and ripe 2 R2). P samples were harvested as green, hard berries of at least 15 mm in size, according to touch-assessed hardiness. Véraison berries with half or full coloured skin surface corresponded to V1 and V2 samples. After véraison, ripening berries were classified according to their floatability in solutions with different NaCl densities, as an indication of the internal sugar concentration. At this stage berries were sampled with densities between 110-130 g NaCl/L for R1 and between 130-150 g NaCl/L for R2, which corresponded to commercially ripen table grape berries. On each of the five samples, frozen berries were dissected and RNA from flesh and skin was obtained and processed for Grapegen Genechip microarray hybridizations. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Pablo Carbonell-Bejerano. The equivalent experiment is VV33 at PLEXdb.]
 
Overall design tissue type name: Flesh - developmental stage name: P(6-replications); tissue type name: Flesh - developmental stage name: V1(6-replications); tissue type name: Flesh - developmental stage name: V2(6-replications); tissue type name: Flesh - developmental stage name: R1(6-replications); tissue type name: Flesh - developmental stage name: R2(6-replications); tissue type name: Skin - developmental stage name: P(6-replications); tissue type name: Skin - developmental stage name: V1(6-replications); tissue type name: Skin - developmental stage name: V2(6-replications); tissue type name: Skin - developmental stage name: R1(6-replications); tissue type name: Skin - developmental stage name: R2(6-replications)
Web link http://www.plexdb.org/modules/PD_browse/experiment_browser.php?experiment=VV33
 
Contributor(s) Carbonell-Bejerano P, Martínez-Zapater JM
Citation(s) 22768087
Submission date Sep 27, 2012
Last update date Sep 27, 2012
Contact name PLEXdb Curator, Sudhansu Dash
Organization name Iowa State University
Department Virtual Reality Application Center
Lab PLEXdb
Street address 1023 Crop Genomes Informatics Lab (Iowa State University)
City Ames
State/province IA
ZIP/Postal code 50011
Country USA
 
Platforms (1)
GPL11004 Affymetrix GrapeGen Vitis vinifera Microarray [CDF: GrapeGena520510F]
Samples (60)
GSM1010462 tissue type name: Flesh - developmental stage name: P - rep1
GSM1010463 tissue type name: Flesh - developmental stage name: P - rep2
GSM1010464 tissue type name: Flesh - developmental stage name: P - rep3
Relations
BioProject PRJNA176154

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
GSE41206_RAW.tar 120.8 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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