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Sample GSM3943773 Query DataSets for GSM3943773
Status Public on Aug 12, 2020
Title T15_He_Tumor tissue_Her2-enriched
Sample type RNA
 
Source name Fresh frozen breast cancer tumor
Organism Homo sapiens
Characteristics population: Mexico hispanic
pam50 molecular subtype: Her2-enriched
tissue: RNA from tumor tissue
Extracted molecule total RNA
Extraction protocol We used AllPrep DNA/RNA Mini Kit
Label biotin
Label protocol WT Plus Reagent Kit were used to generate the biotinylated cRNA starting from 100ng of total RNA according to the manufacturer (Manual Target preparation for GeneChip Whole transcript (WT) expression arrays, Affymetrix).
 
Hybridization protocol Samples were hybridized with GeneChip Human Transcriptome Array 2.0 Arrays (Affymetrix)
Scan protocol Array scanning was performed according to the manufacturer's instruction (Affymetrix). GeneChips were scanned using The Genechip Scanner 3000 7G (Affymetrix , Santa Clara, USA).
Description SST-RMA expression value derived from Expression Console software
Data processing Array signal intensitive were analyzed with the Affymetrix Expression Console using Signal Space Transformation-Robust Multichip Analysis (SST-RMA) for the background correction.
 
Submission date Jul 16, 2019
Last update date Aug 12, 2020
Contact name Alberto Cedro-Tanda
E-mail(s) acedro-tanda@comunidad.unam.mx
Organization name INMEGEN
Lab Cancer Genomics
Street address Periferico sur #4809
City CDMX
State/province CMDX
ZIP/Postal code 14610
Country Mexico
 
Platform ID GPL17586
Series (1)
GSE134359 Long noncoding RNA landscape in breast cancer [Mexico]

Data table header descriptions
ID_REF
VALUE Quantification

Data table
ID_REF VALUE
TC01000001.hg.1 5.8587
TC01000002.hg.1 5.03489
TC01000003.hg.1 3.76286
TC01000004.hg.1 4.68995
TC01000005.hg.1 12.7175
TC01000006.hg.1 18.7701
TC01000007.hg.1 18.2396
TC01000008.hg.1 9.56164
TC01000009.hg.1 5.00088
TC01000010.hg.1 5.08662
TC01000011.hg.1 8.19823
TC01000012.hg.1 6.24733
TC01000013.hg.1 13.8801
TC01000014.hg.1 5.09608
TC01000015.hg.1 6.91149
TC01000016.hg.1 9.3517
TC01000017.hg.1 4.83002
TC01000018.hg.1 9.02342
TC01000019.hg.1 6.56829
TC01000020.hg.1 5.49961

Total number of rows: 70523

Table truncated, full table size 1655 Kbytes.




Supplementary file Size Download File type/resource
GSM3943773_T15_He.CEL.gz 25.2 Mb (ftp)(http) CEL
GSM3943773_T15_He.chp.gz 460.5 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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