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Sample GSM3136998 Query DataSets for GSM3136998
Status Public on Jun 20, 2018
Title BLC_55
Sample type genomic
 
Source name Breast
Organism Homo sapiens
Characteristics disease state: non medullary basal-like breast carcinoma
Extracted molecule genomic DNA
Extraction protocol DNA was extracted from frozen tumor samples using a standard phenol/chloroform procedure
Label biotin
Label protocol As per manufacturer (Affymetrix)
 
Hybridization protocol DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
Scan protocol GeneChips were scanned using the Affymetrix 7G Scanner GCS3000
Description Genome profinling data from MBC and non MBC BLC
Data processing CEL files were generated with Affymetrix Genechip Command Console 3.0.1 for SNP6 chips. Rawcopy (available at http://rawcopy.org/) was used to estimate copy number and B-allele frequency
 
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 GPL6801
Series (2)
GSE114183 Medullary breast carcinoma, a triple-negative breast cancer subtype associated with BRCAness.
GSE114269 Medullary breast carcinoma, a triple-negative breast cancer subtype associated with BCLG overexpression and BRCAness

Data table header descriptions
ID_REF
VALUE B-Allele Frequency (BAF)
LRR Log-R Ratio

Data table
ID_REF VALUE LRR
CN_473963 -0.3476
CN_473964 -0.4849
CN_473965 -0.3118
CN_477984 -0.1409
CN_473981 0.444
CN_473982 0.0339
CN_497980 0.0122
CN_497981 -0.781
CN_513369 0.2221
CN_513370 -0.2634
CN_517762 -0.3961
CN_517763 -0.1961
CN_502615 -0.0533
CN_502613 -0.0509
CN_502614 0.1158
CN_502616 0.7196
CN_502842 0.06
CN_502843 -0.0896
CN_466171 0.2358
CN_466172 0.3497

Total number of rows: 1854055

Table truncated, full table size 40279 Kbytes.




Supplementary file Size Download File type/resource
GSM3136998_BC16_ADN0151_s1h1_Snp6.CEL.gz 28.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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