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Sample GSM937284 Query DataSets for GSM937284
Status Public on Feb 04, 2013
Title Patient-30-6a
Sample type RNA
 
Channel 1
Source name Prostate cancer metastasis
Organism Homo sapiens
Characteristics subject id: 30
sample id: 16016
tissue type: Prostate cancer metastasis
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 -0.381036047
2 -0.089817055
3 0.018240248
4 0.018038177
5 0.045629257
6 -0.034065679
7 -0.055924601
8 -0.103563635
9 -0.084335363
10 -0.069160948
11 -0.003381241
12 0.148766541
13 -0.067803546
14 -1.12352872
15 -0.058790355
16 -0.354679035
17 0.139070406
18 0.161994946
19 -0.522828423
20 -0.053994649

Total number of rows: 45015

Table truncated, full table size 798 Kbytes.




Supplementary file Size Download File type/resource
GSM937284_jhu_251485045719_S01_1_3-16343_cy5-Mix-Ref_cy3.txt.gz 14.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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