We present MAPIT-seq, a method that uses antibody-directed RNA editing to concurrently profile in situ RNA-binding protein (RBP)–RNA interactions and transcriptome-wide gene expression in limited input material, including single cells and frozen tissues. This dual-omic strategy streamlines mechanistic analyses of post-transcriptional regulation in dynamic biological processes and clinically relevant samples.
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References
Hentze, M. et al. A brave new world of RNA-binding proteins. Nat. Rev. Mol. Cell Biol. 29, 327–341 (2018). A review that discusses conventional and unconventional RBPs, including their RNA-binding mechanisms and biological functions.
Lee, F. C. Y. & Ule, J. Advances in CLIP technologies for studies of protein-RNA interactions. Mol. Cell 69, 354–369 (2018). A review that summarizes the principles and technological advances of CLIP-related methods.
Xiao, Y. et al. Profiling of RNA-binding protein binding sites by in situ reverse transcription-based sequencing. Nat. Methods 21, 247–258 (2024). A paper that uses antibody-guided in situ reverse transcription to capture dynamic RNA–protein interactions.
Xu et al. Targeted RNA editing: novel tools to study post-transcriptional regulation. Mol. Cell 82, 389–403 (2022). A review that summarizes various genetic approaches to studying post-transcriptional regulation, with an emphasis on RNA base-editing technologies.
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This is a summary of: Cheng, Q.-X. et al. Co-profiling of in situ RNA-protein interactions and transcriptome in single cells and tissues. Nat. Methods https://doi.org/10.1038/s41592-025-02774-4 (2025).
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MAPIT-seq reveals both RBP targets and transcriptome-wide gene expression profiles. Nat Methods 22, 1768–1769 (2025). https://doi.org/10.1038/s41592-025-02775-3
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DOI: https://doi.org/10.1038/s41592-025-02775-3
