title: RNAseq of human breast cancer tumors
design: RNA sequencing was performed from samples from the clinical trial A Study of AC Followed by a Combination of Paclitaxel Plus Trastuzumab or Lapatinib or Both Given Before Surgery to Patients With Operable HER2 Positive Invasive Breast Cancer (NCT00486668). RNA was extracted from paraffin-embedded post-treatment tumor samples, ribo-zero RNAseq libraries were made using an Illumina TruSeq Stranded Total RNA kit.