Nature research paper: Divergent transcriptional regulation of astrocyte reactivity across disorders
. Experimental models: All ATAC-seq experiments examining LPS or SCI treatments or healthy controls used wild-type or transgenic mice of 657Bl6 background strain. Transgenic mice expressing mGFAP-Cre. The same region of thoracic spinal cord at T9-T10 was harvested for all evaluations. Spinal cord tissue from different experiments were frozen until all experiments were completed. All tissue was then processed at the same time to limit technical variations..
clustering based on differential ATAC peaks across 145,973 high quality nuclei isolated across all conditions showed separation of nuclei into multiple distinct clusters.. distribution of examples of specific DAGs used to identify the dominant cell types in different clusters.. Heatmap of DAGs used to identify specific cell types. Each line represents the per-nucleus z-score for a given gene averaged across all nuclei in a cluster..
and stacked bar graph show relative contribution of biological replicates for different experimental conditions. Because experiments for LPS and SCI were conducted at different times, groups of healthy control mice were collected for each experiment.
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