run_metadata: 35841
This data as json
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| 35841 | SRR33092406 | SRX28356288 | SRS24685480 | SRP578043 | PRJNA1249042 | Anatomical and Molecular Characterization of the Zebrafish Meninges | GSE294335 | Transcriptome Analysis | The meninges are a set of connective tissue layers that surround the central nervous system protecting the brain from mechanical shock supporting its buoyancy guarding it from infection and injury and maintaining brain homeostasis. Despite their critical role the molecular identity developmental origins and functional properties of the cell types populating the meninges remain poorly characterized. This is in large part due to lack of cell type specific markers and difficulty in visualizing and studying these structures through the thick mammalian skull. Here we show that the zebrafish a genetically and experimentally accessible vertebrate possesses an easily imaged mammalian like meninges. Anatomical and cellular characterization of its composition via histology electron microscopy and confocal imaging shows that the adult zebrafish possesses complex multilayered meninges with double layered dura mater and intricate leptomeningeal layers. Using single cell transcriptomics we define the molecular identities of meningeal cell populations including a unique ependymin epd expressing cell population that constitutes the major cellular component of the leptomeningeal barrier and is essential for brain development and survival. These findings support the use of zebrafish as a useful comparative model for studying the meninges provide a foundational description for future zebrafish meningeal research and identify a new Leptomeningeal Barrier Cell that serves as the primary epithelial cell component of the leptomeninges. Overall design: Single cell expression profiling by high throughput sequencing | Zebrafish Adult Pachymeninges scRNA seq | GSM8902567 | source name:Pachymeninges|tissue:Pachymeninges|geo loc name:missing|collection date:missing | Zebrafish Adult Pachymeninges scRNA seq | cellranger count v7.0.0 Assembly: Assembly: zv11 Supplementary files format and content: Supplementary files format and content: TSV value and matrix files | Pachymeninges | Cell suspension prepared from 20 leptomeningeal linings 10 from females 10 from males removed from zebrafish comprising 10 000 cells. Cell suspension prepared from 25 pachymeningeal linings 12 from females 13 from males removed from zebrafish comprising 10 000 cells. 10X 3.1 GEM kits following manufacturer recommendations | tissue:Pachymeninges | GSM8902567 | GSM8902567: Zebrafish Adult Pachymeninges scRNA seq; Danio rerio; RNA Seq | GSM8902567 r1 | GSM8902567 | 1 | Cell suspension prepared from 20 leptomeningeal linings 10 from females 10 from males removed from zebrafish comprising 10 000 cells. Cell suspension prepared from 25 pachymeningeal linings 12 from females 13 from males removed from zebrafish comprising 10 000 cells. 10X 3.1 GEM kits following manufacturer recommendations | RNA-Seq | TRANSCRIPTOMIC | cDNA | PAIRED | ILLUMINA | Illumina NovaSeq 6000 | SRP578043 | loader:fastq load.py | DM1_S8_L002_I1_001.fastq.gz DM1_S8_L002_R1_001.fastq.gz DM1_S8_L002_R2_001.fastq.gz | fastq fastq fastq | 8727095068.0 | 68717284.0 | GSM8902567 r10 | 0:8 1:28 2:91 | A:1890991056;C:1285158535;G:1465221643;T:1611675024;N:226586 | 8 | 28 | 91 | 1890991056 | 1285158535 | 1465221643 | 1611675024 | 226586 | SRX28356288 | SRS24685480 | SRA2109616 | Weinstein Lab, NICHD, NIH | Weinstein Lab, NICHD, NIH | B | usable mapping rate | illumina | novaseq_era | unknown | cdna_unspecified | unknown | sc | single_cell_droplet | 10x | United States | 2025-04-10 | Adult | Adult | Brain | Nervous System |