Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

High-Resolution Molecular Profiling of Epileptic Brain Activity via Explanted Depth Electrodes [Methylation]

ABSTRACT: High-Resolution Molecular Profiling of Epileptic Brain Activity via Explanted Depth Electrodes [Methylation]

PROVIDER: PRJNA1118316 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR29238014_1.fastq.gz	Fastqsanger.gz
	SRR29238014_2.fastq.gz	Fastqsanger.gz
	SRR29238015_1.fastq.gz	Fastqsanger.gz
	SRR29238015_2.fastq.gz	Fastqsanger.gz
	SRR29238016_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 48

Similar Datasets

High-Resolution Molecular Profiling of Epileptic Brain Activity via Explanted Depth Electrodes [Methylation]

Project description:Understanding neurological disorders necessitates systems-level approaches that integrate multimodal data, but progress has been hindered by limited sample availability, and the absence of combined electrophysiological and molecular data from live patients. Here, we demonstrate that stereo electroencephalography (sEEG)—stereologically-implanted electrodes routinely used for monitoring epilepsy—enables the integration of RNA sequencing and epigenome maps with in vivo recordings and brain imaging. Here we report a method MoPEDE (Molecular Profiling of Epileptic Brain Activity via Explanted Depth Electrodes) that enables this by recovering extensive protein-coding transcripts and DNA methylation profiles from explanted depth electrodes containing matched electrophysical and radiological data, hence allowing for high-resolution reconstructions of brain structure and function in patients. Our proof-of-concept study shows that epilepsies of different etiologies have distinct molecular landscapes and identifies transcripts correlating with neurophysiological signals, including immediate early genes, inflammation markers, and axon guidance molecules. Additionally, we identify DNA methylation profiles indicative of transcriptionally permissive or restrictive chromatin states. While gene expression gradients corresponded with the assigned epileptogenicity index, we found outlier molecular fingerprints in some electrodes, potentially indicating seizure spread or generation zones not detected during clinical assessments. These findings validate that RNA profiles and genome-wide epigenetic data from explanted sEEGs offer high-resolution surrogate molecular landscapes of brain activity. This revolutionary approach has the potential to enhance diagnostic decisions and deepen our understanding of epileptogenic processes.

2025-01-15 | GSE268715 | GEO

High-Resolution Molecular Profiling of Epileptic Brain Activity via Explanted Depth Electrodes [RNA-seq]

2025-01-15 | GSE268714 | GEO

High-Resolution Molecular Profiling of Epileptic Brain Activity via Explanted Depth Electrodes [RNA-seq]

Project description:High-Resolution Molecular Profiling of Epileptic Brain Activity via Explanted Depth Electrodes [RNA-seq]

| PRJNA1118317 | ENA

High-resolution multimodal profiling of human epileptic brain activity via explanted depth electrodes.

Project description:The availability and integration of electrophysiological and molecular data from the living brain is critical in understanding and diagnosing complex human disease. Intracranial stereo electroencephalography (SEEG) electrodes used for identifying the seizure focus in patients with epilepsy could enable the integration of such multimodal data. Here, we report multimodal profiling of epileptic brain activity via explanted depth electrodes (MoPEDE), a method that recovers extensive protein-coding transcripts, including cell type markers, DNA methylation, and short variant profiles from explanted SEEG electrodes matched with electrophysiological and radiological data allowing for high-resolution reconstructions of brain structure and function. We found gene expression gradients that corresponded with the neurophysiology-assigned epileptogenicity index but also outlier molecular fingerprints in some electrodes, potentially indicating seizure generation or propagation zones not detected during electroclinical assessments. Additionally, we identified DNA methylation profiles indicative of transcriptionally permissive or restrictive chromatin states and SEEG-adherent differentially expressed and methylated genes not previously associated with epilepsy. Together, these findings validate that RNA profiles and genome-wide epigenetic data from explanted SEEG electrodes offer high-resolution surrogate molecular landscapes of brain activity. The MoPEDE approach has the potential to enhance diagnostic decisions and deepen our understanding of epileptogenic network processes in the human brain.

| S-EPMC11721296 | biostudies-literature

MEC-modified electrodes

Project description:MEC-modified electrodes Raw sequence reads

| PRJNA1174258 | ENA

Rat MeDIP Array, naïve, epileptic, and adenosine treated

Project description:Epilepsy causes altered gene expression; transient adenosine treatment inhibits progression of epileptogenesis Hippocampus of epileptic rat is hypermethylated compared to naïve; adenosine treatment causes hypomethylation Metylation state in epileptic rats (9 weeks post kainic acid induced status epilepticus) was compared to naïve (untreated) rats and epileptic rats treated with adenosine for 5 days

2013-09-05 | E-GEOD-45932 | biostudies-arrayexpress

MEC electrodes genome sequencing

Project description:MEC electrodes genome sequencing Raw sequence reads

| PRJNA482723 | ENA

Microbial species from the electrodes

Project description:Biofilms attached on electrodes. Raw sequence reads

| PRJNA578048 | ENA

Dentate gyrus in epileptic rats

Project description:Dentate gyrus in epileptic rats

| PRJNA215088 | ENA

Differential DNA Methylation Patterns Define Status Epilepticus and Epileptic Tolerance

Project description:Comparison of methylation profiles in the CA3 region of the mouse hippocampus in epileptic tolerance and status epilepticus.