Hoon Kim

AmpliconSuite: an end-to-end workflow for analyzing focal amplifications in cancer genomes

Abstract Here we present AmpliconSuite, a toolkit for focal amplification analysis from cancer whole-genome sequencing that identifies extrachromosomal DNA (ecDNA), breakage–fusion–bridges and other amplification modes. Its ecContext module categorizes ecDNA structures to underst...

RAF1 extrachromosomal DNA amplification confers acquired erlotinib resistance in a non-small cell lung cancer cell model

EGFR (epidermal growth factor receptor)-targeted therapies, which utilize small molecule inhibitors such as erlotinib and osimertinib to inhibit aberrantly activated EGF receptors caused by oncogenic mutations such as L858R and exon 19 deletion occurring primarily in the region c...