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Sample GSM1823893 Query DataSets for GSM1823893
Status Public on Jul 01, 2016
Title CM232-tumor
Sample type RNA
 
Source name breast adenocarcinoma
Organism Homo sapiens
Characteristics sample id: CM232.T.c2
tissue: tumor
er: neg
her2: pos
cohort: cohort_2
age_in_years: 67.9
bmi: 26.9
tumor_size_cm: 2.8
array_scan_date: 2011-11-29
Extracted molecule total RNA
Extraction protocol Tissue samples were stabilized with RNAlater at the time of surgery. After surgery, RNAlater was removed and tissue was stored at -80°C. RNA was extracted with TRIzol (Invitrogen, Carlsbad CA) or TRI reagent (Life Technologies, Gaithersburg MD) and further purified on RNeasy columns in combination with the RNeasy Mini Kit (Qiagen, Valenca, CA). RNA was quantified using a NanoDrop ND-1000 spectrophotometer (Thermo Scientific, Wilmington DE) and quality checked with an Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).
Label Cy3
Label protocol Agilent One-Color Microarray-Based Gene Expression Analysis, Protocol 5.5
 
Hybridization protocol Agilent One-Color Microarray-Based Gene Expression Analysis, Protocol 5.5
Scan protocol Scanning on Agilent scanner G2505C
Description CM232.T.c2
gene expression from breast adenocarcinoma
Data processing Expression data were background-corrected and quantile normalized using limma in R. Features flagged as non-uniform or below-background were excluded.
 
Submission date Jul 15, 2015
Last update date Jul 01, 2016
Contact name David Quigley
Organization name UCSF
Department Helen Diller Comprehensive Cancer Center
Lab Ashworth Lab
Street address 1450 Third St. Room 207
City San Francisco
State/province CA
ZIP/Postal code 94158
Country USA
 
Platform ID GPL13607
Series (2)
GSE70947 Age and estrogen-dependent inflammation in breast adenocarcinoma and normal breast tissue [cohort_2]
GSE70951 Paired Breast Adenocarcinoma and Adjacent Normal tissue

Data table header descriptions
ID_REF
VALUE log2 quantile normalized signal intensity

Data table
ID_REF VALUE
1 13.269
2 5.09
3 5.277
4 8.539
5 7.757
6 7.183
7 10.755
8 7.412
9 5.09
10 6.98
11 5.188
12 10.724
13 11.389
14 6.707
15 7.443
16 5.234
17 6.645
18 4.933
19 5.405
20 10.529

Total number of rows: 62976

Table truncated, full table size 729 Kbytes.




Supplementary file Size Download File type/resource
GSM1823893_111129_252800411569_S01_GE1_107_Sep09_1_3.txt.gz 12.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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