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Sample GSM1327194 Query DataSets for GSM1327194
Status Public on Dec 01, 2015
Title oocyte samples collected from female 1 sampled in Ria de Aveiro (bad quality)
Sample type RNA
 
Source name oocytes of R.decussatus
Organism Ruditapes decussatus
Characteristics tissue: oocytes
d-larval rate (%): 0
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using Extract-all (Eurobio) procedure.
Label Cyanine 3
Label protocol Amplified and labeled according to Agilent Low input One-Color Microarray-Based Gene Expression Analysis protocol
 
Hybridization protocol Hybridized according to Agilent One-Color Microarray-Based Gene Expression Analysis protocol
Scan protocol Array was scanned according to standard Agilent protocol at a resolution of 2 microns modifying default setting to scan the slide twice at two different sensitivity settings (XDRHi 100% and XDRLo 10%)
Description Clam (Ruditapes decussatus) spawned between April 2013 and June 2013 in the experimental bivalve hatchery in Portugal
Gonads RNA of Ruditapes decussatus
Data processing Quantile normalization always outperformed cyclic loess and quantile-normalized data were further adjusted for the known between-experiments batch effects by implementing the parametric Combat in R (Johnson et al., 2007).
 
Submission date Feb 12, 2014
Last update date Dec 01, 2015
Contact name Massimo Milan
E-mail(s) massimo.milan@unipd.it
Phone +39 0498272941
Organization name University of Padova
Department Dept. of Department of Public Health, Comparative Pathology,and Veterinary Hygiene
Street address Viale dell'Università 16
City Legnaro
State/province PD
ZIP/Postal code 35020
Country Italy
 
Platform ID GPL18284
Series (1)
GSE54954 A microarray-based analysis of oocytes quality of the European clam Ruditapes decussatus

Data table header descriptions
ID_REF
VALUE Normalized intensities (Null correspond to control probes)

Data table
ID_REF VALUE
1 null
2 null
3 null
4 13.88621747
5 12.62770312
6 24.04717733
7 1811.934267
8 7.469869761
9 13.7894717
11 12.66979634
12 411.8447128
13 31.5499566
14 18.46202727
15 868.1339321
16 31.0458422
17 144.4548996
18 1448.648755
19 10.54472357
20 14.94264669
21 12.70180873

Total number of rows: 61270

Table truncated, full table size 1047 Kbytes.




Supplementary file Size Download File type/resource
GSM1327194_1.txt.gz 8.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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