Single nuclei RNAseq datasets supporting the impact of primary cilia deficiency on astrocytes' intercellular connectivity and neuronal transcriptomes in the brain.

Astrocyte diversity is greatly influenced by local environmental modulation. In this study, we analyzed the impact of ciliary deficient astrocytes on astrocytes' intercellular communications and neuronal transcriptomes in the brain. Our analysis revealed a broad disturbance of astrocyte intercellular connectomes and profound changes in neuronal transcriptomic profiles induced by ciliary deficiency in astrocytes. Overall design: Nuclei were isolated from mouse (P52) cortices with cell fixation and nuclei fixation kit (Parse Biosciences) from both Arl13bcKO (Arl13blox/lox; Aldh1l1-CreERT2, tamoxifen: P7 to P9) and control (Arl13b+/+; Aldh1l1-CreERT2, tamoxifen: P7 to P9) mice. Cortices of two male mice were combined in each group. A total of 10,000 cells per group were used for library construction using the EvercodeTM Whole Transcriptome Mini kit (Parse Bioscience) as per the manufacturer's protocol. Sequencing was performed using NovaSeq 200 cycle SP. Alignment was performed with the pipeline provided by Parse Biosciences and the resulting gene expression matrix was analyzed using different packages in R.