tissue: breast cancer cells age: 52 race: white er_status: P pcr_vs_rd: RD pr_status: P tbefore: 2 nbefore: 3 bmngrd: 3 er: 90 her2 status: P her2 ihc: 2 her2 fish: 4.5 histology: IDC/DCIS treatment code: TH/FAC treatments comments: Taxol 100mg/m2.q weekly x 12, Trastuzumab, FAC X 4
Treatment protocol
Patients received pretreatment fine-needle aspiration (FNA) of the primary breast tumor or ipsilateral axillary metastasis before starting chemotherapy as part of an ongoing pharmacogenomic marker discovery program. The aspiration was performed using a 23- or 25-gauge needle. Cells from two to three passes were collected in vials containing 1 mL RNA later solution (Ambion, Austin, TX) and stored at -80°C. FNA samples on average contain 80% neoplastic cells and contain little or no stromal cells or normal breast epithelium.
Extracted molecule
total RNA
Extraction protocol
RNA was extracted from FNA samples using the RNAeasy Kit (Qiagen, Valencia, CA). The amount and quality of RNA were assessed with DU-640 UV Spectrophotometer (Beckman Coulter, Fullerton, CA), and they were considered adequate for further analysis if the optical density 260/280 ratio was ≥1.8 and the total RNA yield was ≥ 1μg.
Label
biotin
Label protocol
biotin labeling
Hybridization protocol
Affymetrix protocol
Scan protocol
Affymetrix protocol
Description
MAQC_Distribution_Status: MAQC_T -- Training Please see the GSE20194_MDACC_Sample_Info.xls file on the GSE20194 Series record for additional information on the Sample characteristics
