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Sample GSM3136754 Query DataSets for GSM3136754
Status Public on Jun 20, 2018
Title MBC04
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 10.2084927448553
1053_at 8.74031737051435
117_at 7.03032807555911
121_at 7.71386866585894
1255_g_at 3.27166602225577
1294_at 7.48012027278384
1316_at 4.81571613306605
1320_at 4.47439555575787
1405_i_at 9.32268529515488
1431_at 3.7919017978803
1438_at 9.51154073331098
1487_at 7.52316951991752
1494_f_at 5.0801614355572
1552256_a_at 9.85891640358433
1552257_a_at 9.29097505291149
1552258_at 4.77412301434075
1552261_at 4.43375321889869
1552263_at 5.54615345536616
1552264_a_at 7.37233022640078
1552266_at 3.62153665160332

Total number of rows: 54675

Table truncated, full table size 1479 Kbytes.




Supplementary file Size Download File type/resource
GSM3136754_TM01_ARN0016_s1h1s1_U133p2.CEL.gz 4.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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