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Sample GSM3100537 Query DataSets for GSM3100537
Status Public on Oct 15, 2018
Title BHLH OE Sultana_3
Sample type RNA
 
Source name BHLH overexpressing plantlet of Vitis vinifera cv. Sultana_line 3
Organism Vitis vinifera
Characteristics cultivar: Sultana
genotype/variation: BHLH overexpressing
tissue: young leaves
Treatment protocol For transient transformation of Vitis vinifera cv. Sultana, the 35S:VvBHLH075 construct was transferred to Agrobacterium tumefaciens strain C58C1 by electroporation. As control, Agrobacterium was also transformed with an empty GoldenBraid 2.0 vector (pDGBΩ1). Seven in vitro six-week-old plants of grapevine cv. Sultana were immersed in each bacterial suspension and vacuum infiltrated (2 X 2 min at 90kPa).
Growth protocol For the transient overexpression of VvBHLH075 in grapevine, plantlets of Vitis vinifera cv. Sultana were in vitro micropropagated and cultivated in growth chamber at 25°C with a 16-h photoperiod.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from ~100 mg of young and well expanded ground leaves using SpectrumTM Plant Total RNA kit (Sigma-Aldrich) according to the manufacturer's instructions.
Label Cy3
Label protocol For microarray analysis on Sultana leaves transiently overexpressing VvBHLH075, the cDNA synthesis and labeling reactions have been conducted according to the Agilent Microarray-Based Gene Expression Analysis Guide (V 6.5).
 
Hybridization protocol For microarray analysis on Sultana leaves transiently overexpressing VvBHLH075, the hybridization and washing reactions have been conducted according to the Agilent Microarray-Based Gene Expression Analysis Guide (V 6.5).
Scan protocol Scanning and Feature Extraction were performed by using an Agilent Scanner following the settings and parameters indicated in the instruction manual.
Data processing A data-matrix was prepared selecting from each single sub-array outcome file the gProcessedSignalvalues, which are the raw fluorescence intensities of each probe.
The data were normalized on the 75th percentile and a correlation analysis was then performed to assess the consistency of the biological quadruplicates.
 
Submission date Apr 16, 2018
Last update date Oct 15, 2018
Contact name Silvia Dal Santo
E-mail(s) silvia.dalsanto@univr.it
Organization name University of Verona
Department Department of Biotechnology
Street address Strada Le Grazie, 15
City Verona
ZIP/Postal code 37134
Country Italy
 
Platform ID GPL22427
Series (2)
GSE113224 Timing and order of the molecular events marking the onset of berry ripening in grapevine [BHLH OE]
GSE113225 Timing and order of the molecular events marking the onset of berry ripening in grapevine

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
CUST_1_PI428914343 5.49
CUST_10_PI428914343 3.43
CUST_100_PI428914343 1405.96
CUST_1000_PI428914343 129.49
CUST_10000_PI428914343 175.12
CUST_10001_PI428914343 40.38
CUST_10002_PI428914343 385.06
CUST_10003_PI428914343 62.87
CUST_10004_PI428914343 254.75
CUST_10005_PI428914343 197.24
CUST_10006_PI428914343 5489.53
CUST_10007_PI428914343 145.93
CUST_10008_PI428914343 4296.53
CUST_10009_PI428914343 5507.36
CUST_1001_PI428914343 9.41
CUST_10010_PI428914343 3.75
CUST_10011_PI428914343 174.39
CUST_10012_PI428914343 1.69
CUST_10013_PI428914343 135.73
CUST_10014_PI428914343 186.72

Total number of rows: 34369

Table truncated, full table size 989 Kbytes.




Supplementary file Size Download File type/resource
GSM3100537_BHLH_OE_Sultana_3.txt.gz 1.8 Mb (ftp)(http) TXT
Processed data included within Sample table

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