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Sample GSM1565337 Query DataSets for GSM1565337
Status Public on Dec 16, 2014
Title 35D_3
Sample type RNA
Source name 15 berries incubated for 10 days under 35ºC/Dark condition
Organism Vitis labrusca x Vitis vinifera
Characteristics cultivar: Pione
tissue: grape berry just beginning to show color
Treatment protocol Grape berries just beginning to show color were collected from mature vines of 'Pione'; The berries were incubated for 10 days under one of four conditiond; 15ºC/Light, 15ºC/Dark, 35ºC/Light, 35ºC/Dark.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from frozen samples by the hot borate method (Wan and Wilkins, 1994).
Label Cy3
Label protocol Total RNA (250 ng) was labelled with Cy3 according to the instructions for the Quick Amp Labeling Kit (Agilent, Palo Alto, CA). Labeled cRNA was purified using the RNeasy Mini Kit (Qiagen, Hilden, Germany).
Hybridization protocol Glass slides were hybridized overnight at 65 °C in a hybridization buffer containing a portion of Cy3 -labeled cRNA. After hybridization, slides were washed in Agilent Gene Expression Wash Buffer 1 (Agilent) with 0.005% Triton X-102 for 1 min at room temperature and Agilent Gene Expression Wash Buffer 2 (Agilent) with 0.005% Triton X-102 for 1 min at 37 °C.
Scan protocol Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2565A) using one color scan setting for 1x44k array slides (Scan Area 61x21.6 mm, Scan resolution 10um, Dye channel is set to Green and Green PMT is set to 100%).
Data processing The scanned images were analyzed with Feature Extraction Software 9.5 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.
Submission date Dec 15, 2014
Last update date Dec 16, 2014
Contact name Hiroshi Fujii
Organization name Institute of Fruit Tree Science, NARO
Department Division of Citrus Research
Street address 485-6 Okitsunakacho, Shimizu
City Shizuoka
State/province Shizuoka
ZIP/Postal code 424-0292
Country Japan
Platform ID GPL19557
Series (1)
GSE64153 Microarray Analysis for the Screening of Genes Inducible by Light or Low Temperature in Post-veraison Grape Berries

Data table header descriptions
VALUE Normalized signal intensity

Data table
12 2.8469706
13 6.4349065
14 3.420443
15 2.8643847
16 4.184192
17 10.117339
18 10.708023
19 6.7624865
20 3.8018732
21 2.8880439
22 3.5055277
23 9.307932
24 2.895333
25 9.7604885
26 9.278322
27 7.0418262
28 6.494615
29 7.786173
30 7.6104174
31 2.9071221

Total number of rows: 43765

Table truncated, full table size 656 Kbytes.

Supplementary file Size Download File type/resource
GSM1565337_US22502608_252196310004_S01_GE1-v5_95_Feb07_1_4.txt.gz 6.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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