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Sample GSM3121916 Query DataSets for GSM3121916
Status Public on Apr 30, 2023
Title TNBC sample r2129c
Sample type RNA
 
Source name human breast cancer tissue
Organism Homo sapiens
Characteristics tissue: breast
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using TRIzol reagent (Ambion, Austin, TX, USA), and clean-up was performed using chloroform and isopropanol.
Label biotin
Label protocol Total RNA was amplified and purified using an Ambion Illumina RNA amplification kit (Ambion) to yield biotinylated cRNA according to the manufacturer’s instructions
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Data processing The quality of hybridization and overall chip performance were monitored by visual inspection of both internal quality control checks and the raw scanned data. Raw data were extracted using the software provided by the manufacturer (Illumina GenomeStudio v2011.1 (Gene Expression Module v1.9.0)). Probes signal value was transformed by logarithm and normalized by quantile method.
 
Submission date Apr 30, 2018
Last update date Apr 30, 2023
Contact name Jong Hoon Park
E-mail(s) parkjh@sm.ac.kr
Phone 822-710-9414
Organization name Sookmyung Women's university
Lab Molecular Medicine Lab
Street address Cheongpa-ro 47-gil 100, Yongsan-gu,
City Seoul
ZIP/Postal code 04310
Country South Korea
 
Platform ID GPL10558
Series (1)
GSE113865 Genome-wide gene expression analysis of triple negative breast cancer tissue and matched normal tissue

Data table header descriptions
ID_REF
VALUE quantile normalized
r2129c.Detection Pval

Data table
ID_REF VALUE r2129c.Detection Pval
ILMN_1343291 15.793626 0
ILMN_1343295 13.452997 0
ILMN_1651199 6.683945 0.5766234
ILMN_1651209 7.121419 0.05454545
ILMN_1651210 6.634925 0.6558442
ILMN_1651221 7.279058 0.02077922
ILMN_1651228 13.628762 0
ILMN_1651229 8.894979 0
ILMN_1651230 7.000275 0.1363636
ILMN_1651232 6.838236 0.3285714
ILMN_1651235 7.010422 0.1324675
ILMN_1651236 6.906463 0.2207792
ILMN_1651237 8.520506 0
ILMN_1651238 6.656719 0.6272727
ILMN_1651249 6.686388 0.5727273
ILMN_1651253 7.79922 0
ILMN_1651254 11.849012 0
ILMN_1651259 7.447854 0.009090909
ILMN_1651260 6.396756 0.9428571
ILMN_1651262 12.194046 0

Total number of rows: 47320

Table truncated, full table size 1362 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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