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Sample GSM796384 Query DataSets for GSM796384
Status Public on Feb 01, 2012
Title Normal Breast Sample [ATM_28]
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
Reanalyzed by GSE62502
Reanalyzed by GSE65314

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

Data table
ILMN_2416019 7.284384274
ILMN_2415979 11.77418661
ILMN_2415949 9.002541927
ILMN_2415926 8.587733349
ILMN_2415911 8.602799681
ILMN_2415898 9.124393817
ILMN_2415826 7.493783153
ILMN_2415786 7.936785813
ILMN_2415776 7.504750254
ILMN_2415748 10.92234672
ILMN_2415722 13.95625519
ILMN_2415653 7.195195109
ILMN_2415650 7.355938635
ILMN_2415634 7.240293083
ILMN_2415617 7.463155135
ILMN_2415583 7.568608869
ILMN_2415572 7.722290705
ILMN_2415536 8.36511376
ILMN_2415529 8.663590121
ILMN_2415474 7.399358837

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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