Somatic mutations in the epidermal growth factor receptor (EGFR) gene are associated with the response to EGFR tyrosine kinase inhibitors in patients with non-small cell lung cancer (NSCLC). Increased EGFR copy number has also been associated with sensitivity to these drugs. However, given that it is often difficult to obtain sufficient amounts of tumor tissue for genetic analysis from patients with advanced NSCLC, the relationship between these two types of EGFR alterations has remained unclear. We have now evaluated EGFR mutation status both by direct sequencing and with a high-sensitivity assay, the Scorpion-amplification-refractory mutation system, and have determined EGFR copy number by fluorescence in situ hybridization (FISH) analysis in paired tumor specimens obtained from 100 consecutive patients with advanced NSCLC treated with chemotherapy. EGFR mutations or FISH positivity (EGFR amplification or high polysomy) were apparent in 18% (18/100) and 32% (32/100) of patients, respectively. The Scorpion-amplification-refractory mutation system was more sensitive than direct sequencing for the detection of EGFR mutations. Furthermore, EGFR mutations were associated with EGFR amplification (P = 0.009) but not with FISH positivity (P = 0.266). Our results therefore suggest the existence of a significant association between EGFR mutation and EGFR amplification in patients with advanced NSCLC. (Cancer Sci 2008; 99: 2455-2460) T he epidermal growth factor receptor (EGFR) is a receptor tyrosine kinase of the ErbB family and has been implicated in the proliferation and survival of cancer cells. Aberrant expression of EGFR has been detected in many human epithelial malignancies, including non-small cell lung cancer (NSCLC).(1,2) This receptor has therefore been identified as a promising target for anticancer therapy, and several agents have been synthesized that inhibit its tyrosine kinase activity. EGFR tyrosine kinase inhibitors (TKI) have been evaluated most extensively in individuals with NSCLC, and they have had a substantial impact on the treatment of this disease by offering additional therapeutic options for patients with advanced NSCLC. (3)(4)(5)(6) Somatic mutations in the tyrosine kinase domain of EGFR have been detected in a subset of NSCLC patients who respond to EGFR TKI (7)(8)(9) and have been shown to be closely associated with sensitivity to these drugs.(10-14) Indeed, we and others have prospectively demonstrated a high response rate to EGFR TKI therapy in NSCLC patients with EGFR mutations. (15)(16)(17)(18)(19)(20)(21) An increased copy number of the EGFR gene, as revealed by fluorescence in situ hybridization (FISH), has also emerged as an effective molecular marker of EGFR TKI sensitivity in NSCLC. (22)(23)(24) We previously showed that EGFR mutation and EGFR amplification are associated in human NSCLC cell lines and that endogenous EGFR expressed in such cell lines positive for both of these EGFR alterations are activated constitutively.(25) However, the relationship between EGFR mutation and FI...