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Sample GSM3136793 Query DataSets for GSM3136793
Status Public on Jun 20, 2018
Title TPN_2
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 11.3575525838879
1053_at 7.95947340085627
117_at 6.28836113534921
121_at 7.31108302120172
1255_g_at 3.38296829860256
1294_at 7.05871922656986
1316_at 4.85571982916469
1320_at 4.59507272457911
1405_i_at 8.59818227271525
1431_at 4.11082545562703
1438_at 10.8712319070269
1487_at 7.62542125337443
1494_f_at 5.27907248498411
1552256_a_at 9.78143047372982
1552257_a_at 9.21086740027195
1552258_at 5.01186048898878
1552261_at 4.33587476834982
1552263_at 5.21209722894035
1552264_a_at 6.53252786404333
1552266_at 3.47587199477765

Total number of rows: 54675

Table truncated, full table size 1479 Kbytes.




Supplementary file Size Download File type/resource
GSM3136793_BC04_ARN0062_s1h1s1_U133p2.CEL.gz 4.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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