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Sample GSM2451657 Query DataSets for GSM2451657
Status Public on Sep 05, 2018
Title sample5, dataset5
Sample type RNA
 
Source name breast tumor tissue
Organism Homo sapiens
Characteristics tissue: breast tumor
er status: negative
her2 status: positive
tissue preservation method: FFPE
Treatment protocol NA
Growth protocol NA
Extracted molecule total RNA
Extraction protocol Total RNA from FFPE sections was extracted using miRNeasy FFPE kit according to Qiagen recommendation.
Label biotin
Label protocol Total RNA was amplified and labeled using Affymetrix's SensationPlusTM FFPE Amplification Kit and 3'IVT Labeling kit respectively, according to Affymetrix's recommendation.
 
Hybridization protocol On Affymetrix® HG-U219 Array Plate using GeneTitan® System with GeneTitanTM Hybridization, Wash, and Stain Kit for 3'IVT Array, according to Affymetrix standard procedure.
Scan protocol Using GeneTitan System according to Affymetrix standard procedure.
Data processing Data set was RMA background corrected,quantile normalized and median-polish summarized using expresso function available from bioconductor package affy.
 
Submission date Jan 09, 2017
Last update date Sep 05, 2018
Contact name Vinu Jose
E-mail(s) vinu.jose@yahoo.co.in
Organization name Institut Jules Bordet – Université Libre de Bruxelles (ULB)
Lab Breast Cancer Translational Research Laboratory J.C. Heuson (ULB 290)
Street address Rue Meylemeersch 90
City Brussels
ZIP/Postal code 1070
Country Belgium
 
Platform ID GPL13667
Series (2)
GSE93337 FFPE samples profiled on HG-U219 array with Affymetrix's SensationPlusTM FFPE Amplification and 3'IVT Labeling kit
GSE93338 Feasibility of Developing Reliable Gene Expression Modules from FFPE Derived RNA Profiled on Affymetrix Arrays

Data table header descriptions
ID_REF
VALUE Normalized expression values in log2 scale

Data table
ID_REF VALUE
11715100_at 7.76069864335216
11715101_s_at 6.15885829127616
11715102_x_at 7.31843802010801
11715103_x_at 6.98656528223861
11715104_s_at 4.98274232006968
11715105_at 2.21938287972116
11715106_x_at 5.58797138104962
11715107_s_at 6.55604621732201
11715108_x_at 3.69551561787945
11715109_at 4.56048530206518
11715110_at 4.29821798985136
11715111_s_at 5.77150995290316
11715112_at 1.701076200393
11715113_x_at 5.82492798766644
11715114_x_at 5.85291228145241
11715115_s_at 4.53529916383147
11715116_s_at 7.43171408290969
11715117_x_at 5.72146578466825
11715118_s_at 6.89003647955807
11715119_s_at 4.84259532556409

Total number of rows: 49386

Table truncated, full table size 1467 Kbytes.




Supplementary file Size Download File type/resource
GSM2451657_set5_s5.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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