Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Spatial transcriptomics on human lumbar spinal cord

ABSTRACT: Spatial transcriptomics on human lumbar spinal cord

PROVIDER: PRJNA919178 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR22998818.fastq.gz	Fastqsanger.gz
	SRR22998819.fastq.gz	Fastqsanger.gz
	SRR22998820.fastq.gz	Fastqsanger.gz
	SRR22998821.fastq.gz	Fastqsanger.gz
	SRR22998823.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

Spatial transcriptomics on human lumbar spinal cord

Project description:This study includes spatial transcriptomics on the human lumbar spinal cord using the 10x Genomics Visium platform. Frozen sections of spinal cord were placed on Visium slide arrays and processed using the 10x Genomics workflow, followed by alignment and quantification using the spaceranger package.

2023-01-31 | GSE222322 | GEO

Spatial transcriptomics and single-nucleus RNA-sequencing reveal a transcriptomic atlas of human spinal cord [Spinal spatial]

Project description:Despite the recognized importance of the spinal cord in sensory processing, motor behaviors, and neural diseases, the underlying organization of neuronal clusters and their spatial location remain elusive. Recently, several studies have attempted to define the neuronal types and functional heterogeneity in the spinal cord using single-cell or single-nucleus RNA sequencing in animal models or developing humans. However, molecular evidence of cellular heterogeneity in the adult human spinal cord is limited. Here, we classified spinal cord neurons into 21 subclusters and determined their distribution from nine human donors using single-nucleus RNA sequencing and spatial transcriptomics. Moreover, we compared the human findings with previously published single-nucleus data of the mouse adult spinal cord, which revealed an overall similarity in the neuronal composition of the spinal cord between the two species while simultaneously highlighting some degree of heterogeneity. Additionally, we examined the sex differences in the spinal neuronal subclusters. Several genes, such as SCN10A and HCN1, showed sex differences in motor neurons. Finally, we classified human DRG neurons using spatial transcriptomics and explored the putative interactions between DRG and spinal cord neuronal subclusters. In summary, these results illustrate the complexity and diversity of spinal neurons in humans and provide an important resource for future research to explore the molecular mechanisms underlying spinal cord physiology and diseases.

2024-01-11 | GSE243074 | GEO

MS analysis of phosphopeptides enriched from the lumbar spinal cord of SOD1G93A mice at 20weeks.

Project description:This project is "Phosphoproteomic analysis of the lumbar spinal cord, a lesion site in the amyotrophic lateral sclerosis (ALS) mouse model SOD1G93A mice". The aim of this study is to clarify the phosphorylation changes by the lumbar spinal cord of SOD1G93A mice at 20w by applying proteomics technology. The goal of this study is to better understand the pathogenesis of ALS. lumbar spinal cord of SOD1G93A mice (n=5) and WT mice (n=4) were collected at 20w, and the phosphoproteomics were compared.

2022-05-19 | PXD030651 | JPOST Repository

Gene expression in rat lumbar spinal cord tissues

Project description:We assessed the transcriptome within lumbar spinal cord tissue of wild-type Lewis rats and attractin-mutant rats (LEWzizi; LEW.SD-Atrn zi/zi).

2018-11-08 | GSE119793 | GEO

Spatial transcriptomics and single-nucleus RNA-sequencing reveal a transcriptomic atlas of human spinal cord [DRG Spatial]

2024-01-11 | GSE243073 | GEO

Spatial transcriptomics and single-nucleus RNA-sequencing reveal a transcriptomic atlas of human spinal cord [Spinal snRNA-seq]

2024-01-11 | GSE243076 | GEO

Gene expression in rat lumbar spinal cord tissues

Project description:Gene expression in rat lumbar spinal cord tissues

| PRJNA490333 | ENA

Generation of spinal cord organoids from human induced pluripotent stem cells caudalised to a lumbar fate

Project description:Organoids offer a powerful platform to model human development and disease in vitro while preserving key features of in vivo tissue architecture and complexity. In this study, we developed a novel, reproducible protocol to generate human induced pluripotent stem cell (iPSC)-derived spinal cord organoids specifically patterned to the lumbar region, a segment rarely modelled in vitro. These organoids recapitulate the ventral spinal cord’s cytoarchitecture and exhibit functional neuronal activity, providing a physiologically relevant system for investigating human spinal cord development and neurodegenerative disease mechanisms. Furthermore, we applied 10x Genomics single-cell RNA sequencing to generate the first high-resolution transcriptional map of human lumbar spinal cord organoids, revealing their cellular diversity and molecular signatures.

2025-11-04 | GSE309248 | GEO

Genome wide analysis of the lower lumbar spinal cord at 4 days after T9 hemisection injury

Project description:The goal of this study is to elucidate the influence of hemisection injury at thoracic spinal cord (T9) on the transcriptome of the lower lumbar spinal cord at acute phase. mRNA profiles of spinal cord at 4 days-post injury and before injury were generated. 72 Differentially Expressed Genes (DEGs) were observed. Our study represents the detailed analysis of transcriptomes of spinal cord distal to the hemisected lesion at acute phase, with biologic replicates, generated by RNA-seq technology.

2024-05-21 | GSE115231 | GEO

Genome wide analysis of the upper lumbar spinal cord at 4 days after T9 hemisection injury

Project description:The goal of this study is to elucidate the influence of hemisection injury at thoracic spinal cord (T9) on the upper transcriptome of the upper lumbar spinal cord at acute phase. mRNA profiles of spinal cord at 4 days-post injury and before injury were generated. 72 Differentially Expressed Genes (DEGs) were observed. Our study represents the detailed analysis of transcriptomes of spinal cord distal to the hemisected lesion at acute phase, with biologic replicates, generated by RNA-seq technology.

2024-05-21 | GSE115230 | 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