Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Single-nucleus RNA-sequencing of hippocampal tissues in patients with hippocampal sclerosis

PROVIDER: PRJNA1149456 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR30290800_1.fastq.gz	Fastqsanger.gz
	SRR30290800_2.fastq.gz	Fastqsanger.gz
	SRR30290801_1.fastq.gz	Fastqsanger.gz
	SRR30290801_2.fastq.gz	Fastqsanger.gz
	SRR30290802_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 38

Similar Datasets

Single-nucleus RNA-sequencing of hippocampal tissues in patients with hippocampal sclerosis

Project description:Epilepsy is a global neurological condition affecting over 70 million people. Therin, temporal lobe epilepsy stands to be the most common type of refractory epilepsy critically featured by hippocampal sclerosis. In this study, single-nucleus RNA-sequencing was performed on the nineteen hippocampus samples of patients with hippocampal sclerosis, presenting the first single-nucleus resolution cellular and molecular landscape of human hippocampal sclerosis.

2024-08-20 | GSE275302 | GEO

Gene expression profiling in dentate granule cells from patients with mesial temporal lobe epilepsy with or without hippocampal sclerosis

Project description:Hippocampal sclerosis (HS) is the most common neuropathological finding of medically intractable cases of mesial temporal lobe epilepsy (MTLE), the most common form of partial epilepsy. Within the dentate gyrus, HS may be associated with granule cell dispersion and aberrant mossy fiber sprouting, and these pathological changes are accompanied by a range of molecular changes. In this study, we analyzed the gene expression profiles of dentate granule cells of MTLE patients with and without HS to show that next-generation sequencing methods can produce interpretable genomic data from RNA collected from small homogenous cell populations and to shed light on the transcriptional changes associated with HS. 12 samples of dentate granule cells from patients with mesial tempora lobe epilepsy, 5 with hippocampal sclerosis and 7 without hippocampal sclerosis. 10 samples had replicates.

2016-06-29 | E-GEOD-71058 | biostudies-arrayexpress

Project description:Single-nucleus RNA sequencing of multiple sclerosis lesions

| PRJNA498491 | ENA

Ago iCLIP of TLE patient resected hippocampus

Project description:Nine patients with temporal lobe epilepsy (TLE) underwent hippocampal resection. Six had hippocampal sclerosis, three did not show signs of hippocampal sclerosis. Resected hippocampi were used for Ago iCLIP to detect miRNA targeting in the resected tissue.

2023-06-02 | GSE214317 | GEO

Integrated analysis of expression profile and potential pathogenic mechanism of temporal lobe epilepsy with hippocampal sclerosis

Project description:To investigate the potential pathogenic mechanism of temporal lobe epilepsy with hippocampal sclerosis (TLE+HS), we have employed analyzing of the expression profiles of microRNA/ mRNA/ lncRNA/ DNA methylation in brain tissues of hippocampal sclerosis (TLE+HS) patients. Brain tissues of six patients with TLE+HS and nine of normal temporal or parietal cortices (NTP) of patients undergoing internal decompression for traumatic brain injury (TBI) were collected. The total RNA was dephosphorylated, labeled, and hybridized to the Agilent Human miRNA Microarray, Release 19.0, 8x60K. The cDNA was labeled and hybridized to the Agilent LncRNA+mRNA Human Gene Expression Microarray V3.0，4x180K. For methylation detection, the DNA was labeled and hybridized to the Illumina 450K Infinium Methylation BeadChip. The raw data was extracted from hybridized images using Agilent Feature Extraction, and quantile normalization was performed using the Agilent GeneSpring. We found that the disorder of FGFR3, hsa-miR-486-5p, and lnc-KCNH5-1 plays a key vital role in developing TLE+HS.

2022-06-08 | GSE205661 | GEO

Compartment-specific small RNA sequencing profile of Hippocampal and Cortical cells from Mesial Temporal Lobe Epilepsy tissue

Project description:Mesial temporal lobe epilepsy (mTLE) is a chronic neurological disease characterized by recurrent seizures. The pathogenic mechanisms underlying TLE involve defects in post-transcriptional regulation of gene expression. Previously we have shown the differences in cell compartment specific differential expression of coding transcripts in mTLE hippocampal and cortical samples compared to post-mortem controls (Vangoor et al., MedRxiv. 2021). On the same set of patient samples containing subcellular RNA from resected hippocampal (HC) and neo-cortical (Cx) tissue from mTLE no hippocampal sclerosis (non-HS) and mTLE HS International League Against Epilepsy (ILAE) Type 1 or mTLE+HS patients and postmortem control tissue, we applied small RNA sequencing (smRNA-seq). SmRNA-seq was analyzed for investigating the expression profiles of small non-coding RNA species as microRNAs and transferRNA fragments in human mTLE and control hippocampal tissue.

2024-11-06 | GSE245228 | GEO

Astrocytic EphA4 signaling is important for the elimination of excitatory synapses in Alzheimer’s disease

Project description:Cell surface receptors, including erythropoietin-producing hepatocellular A4 (EphA4), are important in regulating hippocampal synapse loss, which is the key driver of memory decline in Alzheimer’s disease (AD). However, the cellular-specific roles and mechanisms of EphA4 are unclear. Here, we show that EphA4 expression is elevated in hippocampal CA1 astrocytes in AD conditions. Specific knockout of astrocytic EphA4 ameliorates excitatory synapse loss in the hippocampus in AD transgenic mouse models. Single-nucleus RNA sequencing analysis revealed that EphA4 inhibition specifically decreases a reactive astrocyte subpopulation with enriched complement signaling, which are characteristics associated with synapse elimination by astrocytes in AD. Importantly, astrocytic EphA4 knockout in an AD transgenic mouse model decreases complement tagging on excitatory synapses and excitatory synapses within astrocytes. These findings suggest an important role of EphA4 in the astrocyte-mediated elimination of excitatory synapses in AD and highlight the crucial role of astrocytes in hippocampal synapse maintenance in AD.

2025-01-06 | PXD056771 | Pride

Project description:Single-nucleus RNA sequencing of human cortex affected by multiple sclerosis

| PRJNA544731 | ENA

Single-nucleus RNA sequencing of the hippocampal formation from a genetically diverse Alzheimer's disease mouse model (AD-BXDs)

Project description:Cognitive resilience describes a subset of the elderly population that present no cognitive decline despite harboring Alzheimer’s disease (AD) neuropathologies. We used single nucleus RNA-sequencing to profile the hippocampal formation of cognitively resilient and susceptible AD-BXD strains.

2024-02-01 | GSE221959 | GEO

Gene expression profile at single nuclei level of hippocampal neurons from WT and Ts65Dn mice

Project description:In order to characterize the cellular and molecular alterations associated with DS hippocampal dysfunction, given the rich neural cell diversity of this brain region, we used single nucleus RNA sequencing to dissect transcriptional dysregulation associated with specific cell types in the DS mouse model Ts65Dn

2022-10-31 | GSE212351 | 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