Chronic social defeat stress induces meningeal neutrophilia via type I interferon signaling: single cell RNA sequencing data

<p>Meningeal single cell RNA sequencing data</p> <p>Meningeal samples were collected from both dorsal and ventral skull, avoiding inclusion of choroid plexus. Samples were digested in 2.5 mg/mL Collagenase D (Cat. #11088858001; Roche) and 12.5 &mu;L of 0.5 mg/mL DNAseI (Cat. #L5002139; Worthington), put on a shaker at 370C for 30 m, diluted with cold HBSS + 0.1% BSA, and mashed through a 70 &mu;m cell strainer prior to sorting.</p> <p>Data represent live, nucleated, singlet cells (DAPI-DRAQ5+) sorted on a BD FACS Aria Fusion into HBSS + 10% FBS prior to droplet encapsulation using 10x Genomics&rsquo; Drop-seq platform (Chromium v2).</p> <p>10X chip lane is indicate by 'group' column</p> <p>Group 1 = 4 pooled homecage control (unstressed) mice</p> <p>Group 2 = 4 pooled homecage control (unstressed) mice</p> <p>Group 3 = 4 pooled mice exposed to chronic social defeat for 14 days; tissue was collected 2 hours following final defeat</p> <p>See the following repositories for data processing:</p> <p><a href="https://github.com/maryellenlynall/2019_bcell_stress/blob/master/bcellstress20.Rmd">https://github.com/maryellenlynall/2019_bcell_stress/</a> (processing from raw files starts at bcellstress020.Rmd)</p> <p><a href="https://github.com/staceykigar/meningeal_neut/">https://github.com/staceykigar/meningeal_neut/</a></p> <p>We also provide a processed dataset (processed.RData) with assays 'counts' and 'logcounts' which is the processed single cell object saved at line "# Save object for upload to Zenodo" in script&nbsp;<a href="https://github.com/staceykigar/meningeal_neut/">https://github.com/staceykigar/meningeal_neut/</a>neutrophilstress01.Rmd&nbsp;</p> <p>Cluster annotations are in sce$Annotation</p> <p>Neutrophil subcluster annotations are in sce$Subcluster</p> <p>Sample condition is in sce$cond, where "HC" indicates homecage control and "SD" indicates chronic social defeat</p> <p>10X chip lane is in sce$group</p>