Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Detection of genome-wide methylation changes in prion-infected central nervous system

ABSTRACT: Detection of genome-wide methylation changes in prion-infected central nervous system

PROVIDER: PRJNA766085 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR16057610_1.fastq.gz	Fastqsanger.gz
	SRR16057610_2.fastq.gz	Fastqsanger.gz
	SRR16057611_1.fastq.gz	Fastqsanger.gz
	SRR16057611_2.fastq.gz	Fastqsanger.gz
	SRR16057612_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 148

Similar Datasets

Detection of genome-wide methylation changes in prion-infected central nervous system

Project description:Scrapie is a Transmissible Spongiform Encephalopathy (TSE) that affects sheep and goats and it is considered a good natural animal model to study prion diseases. Although changes in DNA methylation occur in many neurodegenerative diseases including human prion diseases, potential DNA methylation alterations have not yet been investigated in the central nervous system (CNS) of any prion disease models or naturally infected cases. We present here a whole genome bisulfite sequencing analysis (WGBS) from thalamus of four naturally scrapie infected sheep and four controls. All animals were female, carried the ARQ/ARQ genotype for the PRNP allele and were sacrificed at similar age (4 to 6 years old). Even if genomes displayed similar average methylation levels, we identified 39 differentially methylated promoters (DMP) and a total of 8,907 differentially methylated regions (DMR). Gene Ontology enrichment revealed that hypomethylated DMRs were enriched in genes involved in transmembrane transport and cell adhesion whereas hypermethylated DMRs were related with intracellular signal transduction genes. Moreover, we compared the set of identified DMRs with genes previously described to be differentially expressed in scrapie and with a set of genes encoding proteins defined to be tenfold more abundant in specific types of CNS cells finding that some of these genes also harboured DMRs. Finally, a validation study using qPCR was conducted showing differences in the expression of five genes (PCDH19, SNCG, WDR45B, PEX1 and CABIN1) that matched the methylation changes observed in the genomic study. Altogether, these findings suggest a potential regulatory role of CNS DNA methylation in prion diseases.

2022-03-10 | GSE184767 | GEO

Dysregulated microRNAs in blood correlate with central nervous system neuropathology of prion disease

Project description:The role of microRNAs (miRNAs) in neurodegenerative diseases has gained significant attention due to their involvement in gene regulation and potential as biomarkers. In prion diseases, including scrapie, miRNAs may modulate pathogenesis and disease progression. This study investigated circulating miRNA profiles in blood of sheep naturally affected by scrapie at preclinical and clinical stages using small RNA sequencing and RT-qPCR validation. While only one novel miRNA was dysregulated in preclinical blood samples, 66 previously identified miRNAs were significantly dysregulated in clinical sheep compared to healthy ones. These miRNAs were associated with pathways commonly altered in neurodegenerative diseases, such as autophagy, ubiquitin-mediated proteolysis, and endoplasmic reticulum protein processing. Notably, miR-1271-5p, let-7f-5p, miR-186-5p, and miR-425-5p showed consistent upregulation in the central nervous system of clinical animals, replicating the results observed in blood, with an increasing trend already in the preclinical stage and a strong correlation with neuropathological prion features. Additionally, predicted target genes such as UBQLN2, PGK1, KRAS, and CLTC were inversely expressed relative to these miRNAs, supporting their regulatory roles. These findings highlight the relevance of circulating miRNAs in prion neuropathology and support further research into the specific functional roles of these miRNAs and their predictive capacity for disease progression.

2025-07-04 | GSE287730 | GEO

Dysregulated microRNAs in blood correlate with central nervous system neuropathology of prion disease

Project description:Dysregulated microRNAs in blood correlate with central nervous system neuropathology of prion disease

| PRJNA1214347 | ENA

Identification of central nervous system genes involved in the host response to the scrapie agent.

Project description:In this study we identified genes differentially expressed in the central nervous system (CNS) of mice during infection with mouse-adapted scrapie agents. We used cDNA microarrays to examine gene expression profiles at early, mid (pre-clinical) and late (clinical) time points after inoculation. Keywords = scrapie Keywords = prion Keywords = CNS Keywords = BMAP

2004-10-13 | E-GEOD-1840 | biostudies-arrayexpress

Efavirenz Central Nervous System Side Effects

Project description:Efavirenz Central Nervous System Side Effects

| PRJNA354669 | ENA

Iodine I 131 Monoclonal Antibody 3F8 in Treating Patients With Central Nervous System Cancer or Leptomeningeal Cancer

Project description:RATIONALE: Radiolabeled monoclonal antibodies, such as iodine I 131 monoclonal antibody 3F8, can find tumor cells and carry tumor-killing substances to them without harming normal cells. This may be an effective treatment for central nervous system cancer or leptomeningeal metastases. PURPOSE: This phase II trial is studying the side effects and how well iodine I 131 monoclonal antibody 3F8 works in treating patients with central nervous system cancer or leptomeningeal cancer.

| 2037925 | ecrin-mdr-crc

Identification of central nervous system genes involved in the host response to the scrapie agent.

2004-10-13 | GSE1840 | GEO

Genomic aberrations in primary central nervous system lymphoma (PCNSL)

Project description:Genomic aberrations in primary central nervous system lymphoma (PCNSL). Two-condition experiment, PCNSLs vs. healthy men. Biological replicates: 12 tumors replicates, 13 peripheral blood replicates.

2010-11-13 | E-GEOD-25298 | biostudies-arrayexpress

Genomic profiling combined with gene expression profiling in primary central nervous system lymphoma

Project description:This SuperSeries is composed of the following subset Series: GSE25297: Genome-wide gene expression comparison (primary central nervous system lymphoma (PCNSL) vs normal lymph node) GSE25298: Genomic aberrations in primary central nervous system lymphoma (PCNSL) Refer to individual Series

2010-11-13 | E-GEOD-25299 | biostudies-arrayexpress

Genomic aberrations in primary central nervous system lymphoma (PCNSL)

Project description:Genomic aberrations in primary central nervous system lymphoma (PCNSL).

2010-11-13 | GSE25298 | GEO