Publications by authors named "J W Squair"
A spinal cord injury (SCI) disrupts the neuronal projections from the brain to the region of the spinal cord that produces walking, leading to various degrees of paralysis. Here, we aimed to identify brain regions that steer the recovery of walking after incomplete SCI and that could be targeted to augment this recovery. To uncover these regions, we constructed a space-time brain-wide atlas of transcriptionally active and spinal cord-projecting neurons underlying the recovery of walking after incomplete SCI.
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- Differential accessibility (DA) analysis helps identify regulatory programs that determine cell type identity and responses to different conditions using single-cell epigenomics data.
- There are various statistical methods for identifying DA regions, but there's no agreement on which ones work best due to the unclear performance principles.
- This study systematically evaluates different statistical methods used in single-cell ATAC-seq data analysis and develops an R package to implement best practices for analyzing scATAC-seq data effectively.
Article Synopsis
- The study investigates the cardiovascular dysfunction caused by spinal cord injury (SCI) and assesses the efficacy of four neuroprotective agents in aiding cardiovascular recovery.
- Male Wistar rats were given spinal contusions and treated with Fluoxetine, Glyburide, Valproic acid, and Indomethacin, with outcomes measured through blood pressure changes, locomotor function, and lesion area.
- The results showed that Indomethacin and Valproic acid led to high mortality rates, while Fluoxetine and Glyburide were tolerated, but none of the treatments significantly improved blood pressure control or locomotor function compared to the control group.
Here, we introduce the Tabulae Paralytica-a compilation of four atlases of spinal cord injury (SCI) comprising a single-nucleus transcriptome atlas of half a million cells, a multiome atlas pairing transcriptomic and epigenomic measurements within the same nuclei, and two spatial transcriptomic atlases of the injured spinal cord spanning four spatial and temporal dimensions. We integrated these atlases into a common framework to dissect the molecular logic that governs the responses to injury within the spinal cord. The Tabulae Paralytica uncovered new biological principles that dictate the consequences of SCI, including conserved and divergent neuronal responses to injury; the priming of specific neuronal subpopulations to upregulate circuit-reorganizing programs after injury; an inverse relationship between neuronal stress responses and the activation of circuit reorganization programs; the necessity of re-establishing a tripartite neuroprotective barrier between immune-privileged and extra-neural environments after SCI and a failure to form this barrier in old mice.
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