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Sample GSM2451649 Query DataSets for GSM2451649
Status Public on Sep 05, 2018
Title sample5, dataset4
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 Nugen's Ovation® FFPE WTA System and EncoreTM Biotin Module respectively, according to Nugen'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)
GSE93336 FFPE samples profiled on HG-U219 array with Nugen's Ovation® FFPE WTA System and EncoreTM Biotin Module
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 5.68265867791107
11715101_s_at 1.7383234510009
11715102_x_at 5.13717231422217
11715103_x_at 5.32157990804504
11715104_s_at 2.90593006295433
11715105_at 2.13133832249704
11715106_x_at 2.29733396114538
11715107_s_at 2.76025820037458
11715108_x_at 1.29534559520038
11715109_at 2.79428637283637
11715110_at 2.27473109275446
11715111_s_at 3.23682102328157
11715112_at 2.45889889460855
11715113_x_at 5.1940490373322
11715114_x_at 5.0697019923552
11715115_s_at 1.19932589731468
11715116_s_at 7.31698560388871
11715117_x_at 3.32346251495332
11715118_s_at 5.63719109117867
11715119_s_at 5.33848329691343

Total number of rows: 49386

Table truncated, full table size 1467 Kbytes.




Supplementary file Size Download File type/resource
GSM2451649_set4_s5.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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