Open-Source DNA-Encoded Library Package for Design, Decoding, and Analysis: DELi

DNA-encoded library (DEL) technology has become a powerful tool in modern drug discovery. Fully harnessing its potential requires the use of advanced computational methodologies, which are often available only through proprietary software. This limitation restricts flexibility and accessibility for academic researchers and small biotech companies, hindering the growth of the technology. Here, we present DELi, an open-source DEL informatics platform designed for library design, NGS decoding and calling, and enrichment analysis. To showcase its capabilities, we used DELi to design an in-house custom library (UNC-DEL006), a benzimidazole-based DEL, and performed proof-of-concept selection experiments against Bromodomain-containing Protein 4 (BRD4). The DELi decoding and analysis modules identified top-performing compounds, leading to the off-DNA synthesis of UNC 002-080, which was confirmed as a nanomolar BRD4 binder via isothermal titration calorimetry (ITC). In contrast, a chemically similar compound not prioritized by DELi, UNC 002-083, showed no measurable binding. These results demonstrate DELi as an effective tool for DEL design and analysis. Further, its open-source nature will promote ongoing development and contributions from the DEL community to expand its applications and capabilities.