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Sample GSM796381 Query DataSets for GSM796381
Status Public on Feb 01, 2012
Title Normal Breast Sample [ATM_25]
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 7.246506338
ILMN_2415979 12.55460559
ILMN_2415949 9.145330947
ILMN_2415926 8.71429659
ILMN_2415911 8.351677326
ILMN_2415898 7.969380021
ILMN_2415826 7.20482685
ILMN_2415786 7.959948841
ILMN_2415776 7.65235869
ILMN_2415748 11.7281229
ILMN_2415722 14.21176966
ILMN_2415653 7.172799834
ILMN_2415650 7.251917807
ILMN_2415634 7.17047826
ILMN_2415617 7.353030061
ILMN_2415583 7.741144686
ILMN_2415572 7.602169171
ILMN_2415536 8.373094586
ILMN_2415529 8.553429008
ILMN_2415474 7.27851761

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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