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Sample GSM3136775 Query DataSets for GSM3136775
Status Public on Jun 20, 2018
Title TPN_1
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 9.62857983149666
1053_at 8.0612127295398
117_at 7.65031058647307
121_at 7.21171118312411
1255_g_at 3.56040420539752
1294_at 7.71172360642893
1316_at 5.14146448590825
1320_at 5.51335645141425
1405_i_at 8.06727425106439
1431_at 3.77563999237611
1438_at 5.78816946994529
1487_at 7.27874052870738
1494_f_at 5.40911507327258
1552256_a_at 8.15913358984019
1552257_a_at 8.35396065008032
1552258_at 5.49579877850093
1552261_at 4.01347173941542
1552263_at 5.94366443720051
1552264_a_at 7.65932265498755
1552266_at 3.592442857989

Total number of rows: 54675

Table truncated, full table size 1479 Kbytes.




Supplementary file Size Download File type/resource
GSM3136775_BC04_ARN0027_s1h1s1_U133p2.CEL.gz 5.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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