sortChIC [version without A-tailing] v1 Article Swipe
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· 2025
· Open Access
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· DOI: https://doi.org/10.17504/protocols.io.81wgbkxdogpk/v1
· OA: W4411836135
This is an adaptation of single-cell sortChIC (Zeller et al., 2023), in which we omit A-tailing and use blunt-end adapters for ligation/barcoding. We made this version to enable benchmarking during development of Dam&ChIC (Kefalopoulou et al., 2025). Generally, we recommend following the original protocol described by Zeller et al., 2023 and Gaza et al., 2024, which includes A-tailing and a different set of adapters. The original protocol involves slightly less hands-on time during sample purifications, and it provides better sensitivity (unique reads/cell). --- For benchmarking of Dam&ChIC (Kefalopoulou et al., 2025), we performed single-cell Dam&ChIC, sortChIC-only and DamID-only in parallel (Figure 1/ED 1). In these experiments, sortChIC-only data was generated by following the Dam&ChIC protocol, with the exception that the DpnI mix did not contain the DpnI enzyme. The protocol described here is further adapted to completely omit the "empty" DpnI mix. ---
