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Sample GSM593691 Query DataSets for GSM593691
Status Public on Nov 04, 2010
Title breast nontumor part_N_rep1 5403
Sample type RNA
 
Channel 1
Source name non-tumor part, Buffer 1
Organism Homo sapiens
Characteristics gender: female
tissue: non tumor part of breast tissue.
Treatment protocol The surgical removed tumors and non-tumor part of breast specimens were excised, collected and snap-frozen in liquid nitrogen immediately before RNA extraction.
Growth protocol The fresh samples used for this study were immediately frozen by liquid nitrogen without any additional growth procedure applied before RNA extraction.
Extracted molecule total RNA
Extraction protocol Trizol reagent combined with RNAeasy mini kit
Label Cy5
Label protocol Agilent Low RNA Input Fluorescent Linear Amplification Kit, protocol version 2.0
 
Channel 2
Source name Commercially available.
Organism Homo sapiens
Characteristics sample type: Stratagene's human common reference RNA
Treatment protocol The surgical removed tumors and non-tumor part of breast specimens were excised, collected and snap-frozen in liquid nitrogen immediately before RNA extraction.
Growth protocol The fresh samples used for this study were immediately frozen by liquid nitrogen without any additional growth procedure applied before RNA extraction.
Extracted molecule total RNA
Extraction protocol Trizol reagent combined with RNAeasy mini kit
Label Cy3
Label protocol Agilent Low RNA Input Fluorescent Linear Amplification Kit, protocol version 2.0
 
 
Hybridization protocol Agilent Oligo Microarray Kit, hybridization protocol version 5.0
Scan protocol Agilent Oligo Microarray Kit, hybridization protocol version 5.0 with Agilent scanner and Feature Extraction 6.0.
Description breast nontumor part_N_rep1

Data processing Agilent Two-Color Microarray-Based Gene Expression Analysis, version 4.0. The log2 ratio for each gene was centered by subtracting the median across all samples to discriminate the subclass of the dataset.
 
Submission date Sep 14, 2010
Last update date Nov 03, 2010
Contact name Fon-Jou Hsieh
E-mail(s) fjhsieh@ntu.edu.tw
Organization name National Taiwan University
Department Department of obstetrics and gynecology
Street address No. 7, Chung-Shan South Rd
City Taipei
ZIP/Postal code 100
Country Taiwan
 
Platform ID GPL887
Series (1)
GSE24124 The inferred mechanisms for prognostic features of signal transducer and activator of transcription 3 in an ER(+) breast cancer model system

Data table header descriptions
ID_REF
VALUE rank-invarriant linear LOWESS normalized log2 Ratio (test/ref)

Data table
ID_REF VALUE
1 1.282536643
2 0
3 -0.161333092
4 2.096651527
5 -0.312415046
6 -1.206205379
7 1.545211463
8 0.318906426
9 0.129182808
10 6.64385619
11 -0.817270716
12 3.422117446
13 1.455795124
14 2.041115533
15 0.344400895
16 1.27121219
17 0
18 0.355535998
20 0
21 2.358296549

Total number of rows: 22153

Table truncated, full table size 380 Kbytes.




Supplementary file Size Download File type/resource
GSM593691.txt.gz 4.4 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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