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Sample GSM471618 Query DataSets for GSM471618
Status Public on Jan 25, 2011
Title kidney_double-transgenic_rat_female_rep7
Sample type RNA
 
Channel 1
Source name kidney, double-transgenic_rat, female
Organism Rattus norvegicus
Characteristics tissue: kidney
strain: double-transgenic_rat
gender: female
age: 7 weeks
Growth protocol Three-week old dTGR and SD were purchased from RCC (Füllinsdorf, Switzerland) and were sacrified at seven weeks.
Extracted molecule total RNA
Extraction protocol total RNA extracted using RNeasy Mini Kit (Qiagen, Hilden, Germany) following the manufacturer's instructions
Label Cy3
Label protocol 1 µg of totRNA were labeled using the low RNA Input Linear Amplification Kit PLUS (Agilent, Austin TX, USA) following the manufacturer's instructions.
 
Channel 2
Source name Stratagene Reference
Organism Rattus norvegicus
Characteristics reference: Pool of 14 rat cell types
Growth protocol Three-week old dTGR and SD were purchased from RCC (Füllinsdorf, Switzerland) and were sacrified at seven weeks.
Extracted molecule total RNA
Extraction protocol total RNA extracted using RNeasy Mini Kit (Qiagen, Hilden, Germany) following the manufacturer's instructions
Label Cy5
Label protocol 1 µg of totRNA were labeled using the low RNA Input Linear Amplification Kit PLUS (Agilent, Austin TX, USA) following the manufacturer's instructions.
 
 
Hybridization protocol a pool of 825 ng of Cy3 labeled aRNA (examined sample) and 825 ng of Cy5 labeled aRNA rat reference (Stratagene, Agilent, Austin TX, USA) were hybridized using the Agilent Hybridization kit (Agilent, Austin TX, USA) according to the manufacturer's instructions. Hybridization was performed for 17 hours and washed according to Agilent's instructions.
Scan protocol Scanned on an Agilent G2505B scanner using Agilent scan control (version 7.0)
Images were quantified using Agilent Feature Extraction Software (version 9.5.3.1).
Description no additional information
Data processing BioConductor package vsn was used for background subtraction, variance-stabilizing normalization and glog transformation
 
Submission date Nov 17, 2009
Last update date Apr 19, 2011
Contact name Axel Klenk
E-mail(s) axel.klenk@idorsia.com
Organization name Idorsia Pharmaceuticals Ltd.
Department Research Informatics
Street address Hegenheimermattweg 91
City Allschwil
ZIP/Postal code 4123
Country Switzerland
 
Platform ID GPL4135
Series (1)
GSE19058 Identification of cathepsin L as a potential sex-specific biomarker for renal damage

Data table header descriptions
ID_REF
VALUE -[INV_VALUE]
INV_VALUE normalized, glog2 ratio (Cy5/Cy3) representing reference/test

Data table
ID_REF VALUE INV_VALUE
1 -2.2147 2.2147
2 0.11014 -0.11014
3 0.06758 -0.06758
4 -0.95829 0.95829
5 0.01822 -0.0182199999999999
6 0.10553 -0.10553
7 -0.22154 0.22154
8 -0.17393 0.17393
9 -0.13209 0.132090000000000
10 0.22405 -0.22405
11 -0.08053 0.08053
12 -0.25758 0.25758
13 0.02961 -0.0296099999999999
14 2.1971 -2.1971
15 -0.48449 0.48449
16 -0.71712 0.71712
17 0.093 -0.093
18 2.63998 -2.63998
19 -0.63496 0.63496
20 -0.7722 0.7722

Total number of rows: 45018

Table truncated, full table size 1113 Kbytes.




Supplementary file Size Download File type/resource
GSM471618.txt.gz 15.3 Mb (ftp)(http) TXT
Processed data included within Sample table

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