Exome seq of MCF-7 human xenograft 240 from mouse after 90 days of withdrawal from exogenous 17b-estradiol
DNA was extracted from formalin-fixed paraffin-embedded (FFPE) tumor tissue specimens using the All Prep DNA/RNA FFPE kit (Qiagen). Nucleic acids were quantified using Qbit and assayed by Fragment Analyzer (Agilent), followed by library preparation using the HyperPrep kit (Kapa Biosystems), multiplexing of 6-8 libraries, and exome capture using the xGen Exome v2 (Integrated DNA Technologies). Exomes were sequenced on an Illumina NextSeq. Reads were trimmed with cutadapt version 2.4, and sample quality was checked with fastqc