(Shall we put the clinical data in both BE and AF
Study Purpose: To use DNA microarray analysis on primary breast tumours of 117 young patients, and applied supervised classification to identify a gene expression signature strongly predictive of a short interval to distant metastases ('poor prognosis' signature) in patients without tumour cells in local lymph nodes at diagnosis (lymph node negative).
Data Description: 98 primary breast cancers: 34 from patients who developed distant metastases within 5 years, 44 from patients who continued to be disease-free after a period of at least 5 years, 18 from patients with BRCA1 germline mutations, and 2 from BRCA2 carriers. To validate the prognosis classifier, an additional independent set of primary tumours from 19 young, lymph-node-negative breast cancer patients was selected. This group consisted of 7 patients who remained metastasis free for at least five years, and 12 patients who developed distant metastases within five years.
Array Type: Agilent chip using inkjet technology. cRNA was generated by in vitro transcription using T7 RNA polymerase on 5 µg total RNA and labelled with Cy3 or Cy5 (CyDye, Amersham Pharmacia Biotech). Five micrograms of Cy-labelled cRNA from one breast cancer tumour was mixed with the same amount of reverse colour Cy-labelled product from a pool, which consisted of an equal amount of cRNA from each individual sporadic patient.
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