NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM3136789 Query DataSets for GSM3136789
Status Public on Jun 20, 2018
Title BLC_68
Sample type RNA
 
Source name Breast
Organism Homo sapiens
Characteristics disease state: non medullary basal-like 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 9.87553345166893
1053_at 8.49339817477823
117_at 7.36121410552151
121_at 7.40069207573126
1255_g_at 3.38416575191292
1294_at 7.55077639762854
1316_at 5.10412191576136
1320_at 4.83788127631948
1405_i_at 8.56154043975815
1431_at 3.80272339738781
1438_at 7.85289158166056
1487_at 7.08476216043358
1494_f_at 5.54388836858286
1552256_a_at 8.77417019486998
1552257_a_at 8.44831355141551
1552258_at 5.36944930416971
1552261_at 4.20798533417909
1552263_at 6.23236214997668
1552264_a_at 7.47909822394868
1552266_at 4.1621639591033

Total number of rows: 54675

Table truncated, full table size 1479 Kbytes.




Supplementary file Size Download File type/resource
GSM3136789_BC04_ARN0054_s1h1s1_U133p2.CEL.gz 4.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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