We have developed CRISPR-assisted RNA–protein interaction detection method (CARPID), which leverages CRISPR–CasRx-based RNA targeting and proximity labeling to identify binding proteins of specific long non-coding RNAs (lncRNAs) in the native cellular context. We applied CARPID to the nuclear lncRNA XIST, and it captured a list of known interacting proteins and multiple previously uncharacterized binding proteins. We generalized CARPID to explore binders of the lncRNAs DANCR and MALAT1, revealing the method’s wide applicability in identifying RNA-binding proteins.

中文翻译：

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CRISPR辅助检测活细胞中的RNA-蛋白质相互作用。

我们开发了 CRISPR 辅助 RNA-蛋白质相互作用检测方法 (CARPID)，该方法利用基于 CRISPR-CasRx 的 RNA 靶向和邻近标记来识别天然细胞环境中特定长非编码 RNA (lncRNA) 的结合蛋白。我们将 CARPID 应用于核 lncRNA XIST，它捕获了一系列已知的相互作用蛋白和多个以前未表征的结合蛋白。我们将 CARPID 推广到探索 lncRNA DANCR 和 MALAT1 的结合剂，揭示了该方法在识别 RNA 结合蛋白方面的广泛适用性。