Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single cell RNA (scRNAseq) and T cell receptor sequencing (scTCRseq) of cerebrospinal fluid (CSF) samples from three patients with spinal cord injury (SCI) [scRNA-seq]

ABSTRACT: The CSF encompasses a highly controlled immune system. However, little is known about the alterations in CSF immune microenvironment after SCI. Here, we performed scRNA and TCRseq on CSF collected from three SCI patients caused by car accidents to analyze the transcriptomic changes of CSF immune cells.

ORGANISM(S): Homo sapiens

PROVIDER: GSE254355 | GEO | 2025/04/03

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Single cell RNA (scRNAseq) and T cell receptor sequencing (scTCRseq) of cerebrospinal fluid (CSF) samples from three patients with spinal cord injury (SCI) [TCR-seq]

Project description:The CSF encompasses a highly controlled immune system. However, little is known about the alterations in CSF immune microenvironment after SCI. Here, we performed scRNA and TCRseq on CSF collected from three SCI patients caused by car accidents to analyze the transcriptomic changes of CSF immune cells.

2025-04-03 | GSE254354 | GEO

scRNAseq + scV(D)J of cerebrospinal fluid samples across age

Project description:Cerebrospinal fluid (CSF) contains a tightly regulated, specialized immune system. Yet, little is known about how aging influences CSF immunity in cognitively typical versus cognitively impaired individuals. Here, we performed single cell RNA sequencing (scRNAseq) on CSF collected from 45 cognitively typical subjects ranging from 54-82 years old. We then assessed age-related transcriptomic changes using several bioinformatic approaches, including linear and local polynomial regression. We reveal pronounced changes to several CSF immune cell types that occur around age 75, including alterations to clonally expanded T cells and activated monocytes. We then compared CSF immune systems from cognitively typical subjects to 14 subjects with mild cognitive impairment or Alzheimer’s disease. Our results indicate disparate age-related CSF immune system perturbations in cognitively impaired subjects. These results highlight the potential to utilize CSF immune changes to identify age-related neuroinflammation in cognitively impaired individuals.

2022-12-12 | GSE200164 | GEO

Clonally expanded CD8 T cells patrol Alzheimer's cerebrospinal fluid [CSF]

Project description:Alzheimer’s disease (AD) is an age-related neurodegenerative disorder in which neuroinflammation plays a critical function. Recurring viral infections and loss of immune competence increase risk for developing AD, yet the cellular and molecular mechanisms driving these immune changes are unknown. Here we performed mass cytometry of peripheral blood mononuclear cells and detected an immunologic signature of AD characterized by increased numbers of CD8+ T effector memory CD45RA+ (TEMRA) cells. CD8+ TEMRA cells were negatively associated with cognition and single cell RNA sequencing revealed their cytotoxic effector function. Strikingly, we discovered identical, shared T cell receptors (TCRs) of clonally expanded CD8+ TEMRA cells in cerebrospinal fluid (CSF) of three AD patients. Deep TCR sequencing, machine learning, and peptide screens identified the HLA-B*08:01-restricted Epstein-Barr virus trans-activator protein BZLF1 as the cognate antigen of a novel AD CSF TCR . These results provide the first evidence of clonal, antigen-specific T cells patrolling the intrathecal space of brains affected by age-related neurodegeneration

2019-11-04 | GSE134577 | GEO

Single cell RNA (scRNAseq) and T cell receptor sequencing (scTCRseq) of cerebrospinal fluid (CSF) samples from three patients with spinal cord injury (SCI) [scRNA-seq]

Project description:Single cell RNA (scRNAseq) and T cell receptor sequencing (scTCRseq) of cerebrospinal fluid (CSF) samples from three patients with spinal cord injury (SCI) [scRNA-seq]

| PRJNA1070003 | ENA

Single cell RNA (scRNAseq) and T cell receptor sequencing (scTCRseq) of cerebrospinal fluid (CSF) samples from three patients with spinal cord injury (SCI) [TCR-seq]

Project description:Single cell RNA (scRNAseq) and T cell receptor sequencing (scTCRseq) of cerebrospinal fluid (CSF) samples from three patients with spinal cord injury (SCI) [TCR-seq]

| PRJNA1070002 | ENA

miRNA Expression from Cerebrospinal Fluid (CSF) from Prodromal Huntington Disease Patients

Project description:Analysis of microRNA (miRNA) expression in CSF from prodromal Huntington disease patients.

2020-05-10 | GSE150174 | GEO

CSF

Project description:CSF

| PRJEB14301 | ENA

sci-ATAC-seq data

Project description:sci-ATAC-seq data

| PRJNA785974 | ENA

sci-RNA-seq data

Project description:sci-RNA-seq data

| PRJNA785988 | ENA

scRNAseq of blood and CSF CD4+ T cells from MS patients and controls

Project description:To study the regulation of candidate genes from our study in human cells, we analyzed CD4+ T cells from blood and CSF of MA patients and age and sex matched idiopathic intracranial hypertension controls We analyzed 40845 cells in control blood, 807 cells in control CSF, 29749 cells in MS blood and 15768 cells in MS CSF

2023-08-01 | GSE232343 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data