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Sample GSM937293 Query DataSets for GSM937293
Status Public on Feb 04, 2013
Title NormalProstate_219
Sample type RNA
 
Channel 1
Source name Normal Prostate
Organism Homo sapiens
Characteristics subject id: NP_219
sample id: NP_219
tissue type: Normal Prostate
Growth protocol DNA was obtained from metastatic prostate cancer tissues from the PELICAN rapid autopsy program at Johns Hopkins University, and from normal prostate tissues from organ donors.
Extracted molecule total RNA
Extraction protocol TriZol extraction followed by RNeasy kit (Qiagen) clean-up with on-column DNase treatment
Label Cy5
Label protocol Agilent low RNA input linear amplification kit
 
Channel 2
Source name pooled reference
Organism Homo sapiens
Characteristics sample type: pooled reference
Growth protocol DNA was obtained from metastatic prostate cancer tissues from the PELICAN rapid autopsy program at Johns Hopkins University, and from normal prostate tissues from organ donors.
Extracted molecule total RNA
Extraction protocol TriZol extraction followed by RNeasy kit (Qiagen) clean-up with on-column DNase treatment
Label Cy3
Label protocol Agilent low RNA input linear amplification kit
 
 
Hybridization protocol Agilent Gene Expression Hybridization Kit using the manufacturer's protocol.
Scan protocol Microarrays are scanned with the Agilent G2565BA microarray scanner
Data processing The Bioconductor limma (v 3.10.3) was used to background correct (normexp model), loess and quantile normalize the data
 
Submission date May 25, 2012
Last update date Feb 04, 2013
Contact name Martin Aryee
E-mail(s) aryee.martin@mgh.harvard.edu
Organization name Massachusetts General Hospital
Department Pathology
Street address 149 13th Street
City Charlestown
State/province MA
ZIP/Postal code 02129
Country USA
 
Platform ID GPL4133
Series (2)
GSE38241 Gene expression profiling of normal prostates and prostate cancer metastases
GSE38242 DNA methylation alterations exhibit striking intra-individual stability and inter-individual heterogeneity across metastatic dissemination

Data table header descriptions
ID_REF
VALUE normalized log2 ratio (Cy5/Cy3) representing test/reference

Data table
ID_REF VALUE
1 -0.871862211
2 0.00321837
3 0.075298887
4 0.006023317
5 0.022182244
6 0.032717384
7 -0.045540654
8 0.016610476
9 -0.022151754
10 -0.086402784
11 0.041504508
12 0.057765202
13 -0.109135973
14 -0.062659013
15 -0.416371865
16 -0.13128076
17 0.288011912
18 -0.20098393
19 -0.096794603
20 -0.037584326

Total number of rows: 45015

Table truncated, full table size 796 Kbytes.




Supplementary file Size Download File type/resource
GSM937293_jhu_251485045696_S01_1_3-I-219_cy5-Mix-Ref_cy3.txt.gz 14.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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