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Sample GSM796374 Query DataSets for GSM796374
Status Public on Feb 01, 2012
Title Normal Breast Sample [ATM_17]
Sample type RNA
 
Source name Normal Breast Sample
Organism Homo sapiens
Characteristics tissue: breast
gender: female
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from all samples using Qiazol (Invitrogen, Carlsbad, CA, USA) following manufacturer's instructions. The RNA was subsequently treated with DNaseI and repurified using acidic phenol-chlorophorm, and ethanol precipitation. DNA and RNA integrity were checked using the Agilent Bioanalyzer (Agilent Technologies, Santa Clara, CA, USA).
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Data processing The bead-level data were preprocessed using BASH (Cairns et al. (2008) Bioinformatics 24(24):2921-2), a function from the beadarray package (Dunning et al (2007) Bioinformatics 23(16):2183-4) in Bioconductor, and also log base 2 transformed and quantile normalised using the beadarray package.
 
Submission date Sep 14, 2011
Last update date Jan 26, 2015
Contact name Ana Teresa Maia
Organization name University of Cambridge
Department Department of Oncology
Lab Cambridge Research Institute
Street address Robinson Way
City Cambridge
State/province Cambridgeshire
ZIP/Postal code CB2 0RE
Country United Kingdom
 
Platform ID GPL6947
Series (2)
GSE32124 Effects of BRCA2 cis-regulation in normal breast and cancer risk amongst BRCA2 mutation carriers [expression data]
GSE32259 Effects of BRCA2 cis-regulation in normal breast and cancer risk amongst BRCA2 mutation carriers
Relations
Reanalyzed by GSE62502
Reanalyzed by GSE65314

Data table header descriptions
ID_REF
VALUE log base 2 transformed and quantile normalized

Data table
ID_REF VALUE
ILMN_2416019 7.417926847
ILMN_2415979 12.60129028
ILMN_2415949 9.057700043
ILMN_2415926 9.090181807
ILMN_2415911 8.65431829
ILMN_2415898 8.320261837
ILMN_2415826 7.25302857
ILMN_2415786 8.897078178
ILMN_2415776 7.669749507
ILMN_2415748 11.48318175
ILMN_2415722 14.11827382
ILMN_2415653 7.164509703
ILMN_2415650 7.247537031
ILMN_2415634 7.100948481
ILMN_2415617 7.345873626
ILMN_2415583 7.321770353
ILMN_2415572 7.808722313
ILMN_2415536 8.461119958
ILMN_2415529 9.170649243
ILMN_2415474 7.292320313

Total number of rows: 48803

Table truncated, full table size 1186 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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