NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM3136745 Query DataSets for GSM3136745
Status Public on Jun 20, 2018
Title MBC30
Sample type RNA
 
Source name Breast
Organism Homo sapiens
Characteristics disease state: medullary breast carcinoma
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions. A cleanup with RNAII Nucleospin was conducted according Macherey Nagel recommendations
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the Affymetrix two round amplification protocol from 100ng total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of labelled cRNA were hybridized for 16 hr on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station FS450.
Scan protocol GeneChips were scanned using Affymetrix GeneChip GCS3000 scanner.
Data processing Raw data were controlled using Genechip Operating Software and Affymetrix MAS5 algorithm to control the quality of hybridization and synthesis steps. Raw data were analysed using R/Bioconductor and normalized by RMA method.
 
Submission date May 08, 2018
Last update date Jun 20, 2018
Contact name Cecile Laurent
E-mail(s) cecile.laurent@curie.fr
Organization name Institut Curie
Street address 26 rue d'ulm
City Paris Cedex 05
ZIP/Postal code 75248
Country France
 
Platform ID GPL570
Series (2)
GSE114168 Medullary breast carcinoma, a triple-negative breast cancer subtype associated with BCLG overexpression.
GSE114269 Medullary breast carcinoma, a triple-negative breast cancer subtype associated with BCLG overexpression and BRCAness

Data table header descriptions
ID_REF
VALUE RMA signal intensity.

Data table
ID_REF VALUE
1007_s_at 9.34214829022132
1053_at 7.67903701190827
117_at 7.20857224957089
121_at 7.08426816703617
1255_g_at 3.2859369755306
1294_at 8.18303775833135
1316_at 4.87250395109378
1320_at 4.26814734097421
1405_i_at 10.1103784543129
1431_at 3.58351360841602
1438_at 7.17904712763436
1487_at 7.34648277647581
1494_f_at 5.00576527098144
1552256_a_at 8.0771664630126
1552257_a_at 9.19335146263439
1552258_at 5.27929527200999
1552261_at 4.4489954649348
1552263_at 6.65021720529632
1552264_a_at 7.37650551379707
1552266_at 3.95188497099537

Total number of rows: 54675

Table truncated, full table size 1479 Kbytes.




Supplementary file Size Download File type/resource
GSM3136745_TM01_ARN0003_s1h1s1_U133p2.CEL.gz 4.5 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap