Amplicon data from CRISPRi screen of ecDNA-interacting elements identified in COLO 320DM, 3 Days Rep 1
sgRNAs targeting elements were designed using the Broad Institute sgRNA designer online tool (https://portals.broadinstitute.org/gpp/public/analysis-tools/sgrna-design). The oligo pool encoding guides (Supplementary table T10) were synthesized by Twist Bio and inserted into addgene Plasmid #52963 lentiGuide-Puro digested with Esp3I enzyme (NEB). To evaluate the effects of CRISPR interference cells were transduced with sgRNA lentiviruses, incubated for 2 days and selected with 0.5ug/ml puromycin for 4 days. Cells were harvested after 4 days (baseline), 3 days, one week and one month. gRNA was amplified from the genome using two-step PCR and sequenced.