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Sample GSM1071654 Query DataSets for GSM1071654
Status Public on Mar 24, 2016
Title 2_before
Sample type RNA
 
Source name 2_before_R
Organism Homo sapiens
Characteristics tissue: breast cancer tissue
patient: 2
time point: before neoadjuvant chemotherapy
Treatment protocol All patients received epirubicin (75 mg/m2)–cyclophosphamide (750 mg/m2) intravenously every 3 weeks for four cycles followed by docetaxel (100 mg/m2) every 3 weeks for four cycles. We selected patients for who both biopsy and tumorectomy tissues were available. Surgery (lumpectomy or modified radical mastectomy associated to axillary clearance) was performed 21–45 days after cycle 8, according to initial and post-chemotherapy assessment
Extracted molecule total RNA
Extraction protocol Qiazol extraction followed Qiagen miRNeasy protocol
Label Biotin
Label protocol 100ng of total RNA was amplified by the Ambion® WT expression kit (ref 4411974) to generate cDNA sense target. Then products were labeled (biotinylated) using Affymetrix WT terminal labelling kit (ref 901524)
 
Hybridization protocol Following fragmentation, 5.5 ug of cDNA were hybridized for 17 hours at 45°C on Human Gene 1.1ST array plates. GeneChips were washed and stained in the Affymetrix® GeneTitan device.
Scan protocol GeneChip were scanned by Affymetrix® GeneTitan.
Description Gene expression of patient 2 before neoadjuvant chemotherapy
Data processing The data were analyzed with Partek Genomics Suite version 6.6. Normalization was performed using RMA bacground correction with pre-background adjustment for GC content.
 
Submission date Jan 28, 2013
Last update date Mar 24, 2016
Contact name Fatima Mechta-Grigoriou
E-mail(s) fatima.mechta-grigoriou@curie.fr
Phone +33156246653
Fax +33156246650
Organization name Institut Curie
Department INSERM U830
Lab "Stress and Cancer" Lab.
Street address 26 rue d'Ulm
City PARIS
ZIP/Postal code 75248
Country France
 
Platform ID GPL11532
Series (1)
GSE43816 Response to Neoadjuvant Chemotherapy in Triple Negative Breast tumors.

Data table header descriptions
ID_REF
VALUE RMA signal intensity

Data table
ID_REF VALUE
7997332 6.50421
8072798 6.92835
8157283 7.47186
7947375 4.08693
7972810 8.00208
8097335 7.3149
7997336 4.11351
8047381 9.23478
8022856 6.50713
8157300 6.39147
8072817 6.21894
7997346 3.82743
8157308 4.98286
8107350 7.53783
8072825 6.62027
7972826 4.68453
8047403 5.55446
7997352 6.25647
8107353 5.94949
7922870 7.23864

Total number of rows: 23204

Table truncated, full table size 360 Kbytes.




Supplementary file Size Download File type/resource
GSM1071654_BC36_ARN0003_s1h1_C05_hGene.CEL.gz 4.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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