4200 tapestion and genomic dna screentape

Formalin-fixed, paraffin-embedded (FFPE) tissues were prepared; tumor DNA was extracted and purified using the TANBead OptiPure FFPE DNA Tube (Taiwan Advanced Nanotech, Taoyuan, Taiwan). EGFR genotyping was then performed as described above.
Blood samples (5 mL) were collected in K2-EDTA tubes; plasma was isolated via centrifugation at 1000 g at 4 °C for 10 min within 2 h of collection. Plasma cfDNA was isolated and purified using either the High Pure PCR Template Preparation Kit (Roche Diagnostics) [26 (link)] or TANBead OptiPure cfDNA Auto Tube (Taiwan Advanced Nanotech). EGFR genotyping was then performed as described above. The quality and length of the purified DNA were analyzed using a 4200 Tapestion and Genomic DNA ScreenTape (Agilent Technologies, Santa Clara, CA, USA). The concentration and purity of DNA samples were measured using the NanoDrop (Thermo Scientific, Waltham, MA, USA).

EVs were isolated from 1 mL of BALF samples within 2 h of collection. Briefly, cells and debris were removed by centrifugation at 1000 g for 10 min at 4 °C. Next, the cell- and debris-free BALF sample was spun in an ultracentrifuge tube at 200,000 g for 1 h at 4 °C using a Beckman rotor (Beckman Coulter, Brea, CA, USA). The supernatant was carefully removed and discarded, and the pellet was suspended in 200 μL of phosphate-buffered saline. The EV pellet was then lysed by mixing lysis buffer (10 mM Tris-HCl, 20% Triton X-100) and detergent to isolate EV-derived DNA, which was further purified using the High Pure PCR Template Preparation Kit (Roche Diagnostics, Mannheim, Germany). The quality and length of the purified DNA were analyzed using a 4200 Tapestion and Genomic DNA ScreenTape (Agilent Technologies, Santa Clara, CA, USA). The concentration and purity of DNA samples were measured using the NanoDrop (Thermo Scientific, Waltham, MA, USA).