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Sample GSM595430 Query DataSets for GSM595430
Status Public on Nov 18, 2010
Title Mouse testis, biological replicate 3
Sample type RNA
 
Source name Mouse testis
Organism Mus musculus
Characteristics tissue: testis
strain: C57Bl6
Sex: male
age: 10-12 weeks old
Extracted molecule total RNA
Extraction protocol Total RNA from mouse tussues was extracted using Trizol reagent according to the manufacturer's protocol (Invitrogen), followed by a cleanup procedure with Rneasy colmuns (Qiagen). RNA from mouse islets as well as mouse pituitary and adrenal gland was extracted using the absolutely RNA microprep (Stratagene). For MIN6 cells we used the PureLink micro-to-midi RNA kit (INvitrogen)
Label Biotin
Label protocol Cellular mRNA was reverse transcribed into cDNA (SuperScript Choice System Invitrogen, Carlsbad, CA using oligo-dT primers and a T7 RNA polymerase promoter site). Two ug of total RNA was used to prepare biotinylated cRNA with IVT labeling kit (Affymetrix, Santa Clara, CA) according to the Genechip expression analysis technical manual 701025 Rev.5. The concentration of labelled cRNA was measured using the NanoDrop ND-1000 spectrophotometer. Labeled cRNA was fragmented in a fragmentation buffer during 35 min at 94C. The quality of labelled and fragmented cRNA was analysed using the Agilent bioanalyzer 2100.
 
Hybridization protocol Fragmented cRNA was hybridised to mouse 430 2.0 arrays (Affymetrix) during 16h at 45C.
Scan protocol The arrays were washed and stained in a fluidics station (Affymetrix) and scanned using the Affymetrix 3000 GeneScanner.
Description CEL file uploaded in GSE9954
GSM252112
Data processing All images were analyzed using GCOS version 1.4 with the MAS5 algorithm
 
Submission date Sep 17, 2010
Last update date Nov 18, 2010
Contact name Katleen Lemaire
E-mail(s) katleen.lemaire@med.kuleuven.be
Organization name K.U.Leuven
Street address Herestraat 49, bus 901
City Leuven
ZIP/Postal code 3000
Country Belgium
 
Platform ID GPL1261
Series (1)
GSE24207 mRNA analysis in different mouse tissues
Relations
Reanalysis of GSM252130

Data table header descriptions
ID_REF
VALUE absolute MAS5 signals

Data table
ID_REF VALUE
1415670_at 272
1415671_at 605
1415672_at 1034
1415673_at 327
1415674_a_at 755
1415675_at 461
1415676_a_at 1331
1415677_at 1154
1415678_at 998
1415679_at 2031
1415680_at 219
1415681_at 694
1415682_at 92
1415683_at 1486
1415684_at 51
1415685_at 223
1415686_at 119
1415687_a_at 896
1415688_at 329
1415689_s_at 54

Total number of rows: 45037

Table truncated, full table size 636 Kbytes.




Supplementary file Size Download File type/resource
GSM595430.CEL.gz 3.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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