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Sample GSM309707 Query DataSets for GSM309707
Status Public on Oct 27, 2008
Title Bovine Oocyte invivo, biological rep1
Sample type RNA
 
Source name Bovine Invivo cultured Oocytes
Organism Bos taurus
Characteristics In vivo derived: Oocyte
Extracted molecule polyA RNA
Extraction protocol Poly(A)+ RNA was isolated with a Dynabeads mRNA Direct Kit (Invitrogen) according to the manufacturer's instructions.
Label biotin
Label protocol biotin-labeled cRNA was prepared in an in vitro transcription reaction using the GeneChip IVT Labeling Kit (Affymetrix).
 
Hybridization protocol Ten μg of fragmented cRNA was used for hybridization on the GenChip Bovine Genome Array (Affymetrix) overnight at 45°C according to the manufacture’s instructions.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner.
Description Gene expression data from Invivo cultured Oocyte
Data processing The Bioconductor open source library was used for initial processing of the raw files. CEL files were preprocessed using the GCRMA algorithm of the GCRMA package [v2.0.0] and detection calls were obtained using the mas5calls function of the Affymetrix platform.
 
Submission date Aug 04, 2008
Last update date Aug 04, 2008
Contact name Smita Sudheer
E-mail(s) sudheer@molgen.mpg.de, adjaye@molgen.mpg.de, kues@tzv.fal.de, niemann@tzv.fal.de
Organization name Max Planck Institute for Molecular Genetics
Street address Ihnestr. 63-73
City Berlin
ZIP/Postal code 14195
Country Germany
 
Platform ID GPL2112
Series (1)
GSE12327 Expression profiling reveals distinct clusters of transcriptional regulation during bovine preimplantation in vivo

Data table header descriptions
ID_REF
VALUE Log2 transformed signal intensities

Data table
ID_REF VALUE
AFFX-BioB-3_at 7.831218838
AFFX-BioB-5_at 7.611571457
AFFX-BioB-M_at 8.956759358
AFFX-BioC-3_at 9.704080921
AFFX-BioC-5_at 8.9427163
AFFX-BioDn-3_at 11.90039024
AFFX-BioDn-5_at 11.59061812
AFFX-Bt-A00196-1_s_at 2.02180828
AFFX-Bt-AB076373-1_at 2.223685161
AFFX-Bt-actin-3_at 2.801564687
AFFX-Bt-actin-5_at 2.519670011
AFFX-Bt-actin-M_at 2.198842512
AFFX-Bt-AF292559-1_at 2.110046635
AFFX-Bt-AF292559-2_s_at 3.57534961
AFFX-Bt-AF292559-3_s_at 3.082221695
AFFX-Bt-AF292559-4_s_at 2.096000335
AFFX-Bt-AF292560-1_s_at 3.008451533
AFFX-Bt-AF298789-1_at 2.142825349
AFFX-Bt-AF323980-1_at 2.411402842
AFFX-Bt-AJ002682-1_s_at 2.076963366

Total number of rows: 24128

Table truncated, full table size 676 Kbytes.




Supplementary file Size Download File type/resource
GSM309707.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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