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Isoform cell type specificity in the mouse primary motor cortex

By A. Sina Booeshaghi, Zizhen Yao, Cindy van Velthoven, Kimberly Smith, Bosiljka Tasic, Hongkui Zeng, Lior Pachter

Posted 05 Mar 2020
bioRxiv DOI: 10.1101/2020.03.05.977991

Full-length SMART-Seq single-cell RNA-seq can be used to measure gene expression at isoform resolution, making possible the identification of isoform markers for cell types and for an isoform atlas. In a comprehensive analysis of 6,160 mouse primary motor cortex cells assayed with SMART-Seq, we find numerous examples of isoform specificity in cell types, including isoform shifts between cell types that are masked in gene-level analysis. These findings can be used to refine spatial gene expression information to isoform resolution. Our results highlight the utility of full-length single-cell RNA-seq when used in conjunction with other single-cell RNA-seq technologies.

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