Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Illumina cleaned reads from ME/CFS whole faecal metagenome

ABSTRACT: Comprehensive profiling of the human gut virome in ME/CFS (II)

PROVIDER: PRJEB57953 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR10558147_1.fastq.gz	Fastqsanger.gz
	ERR10558147_2.fastq.gz	Fastqsanger.gz
	ERR10558148_1.fastq.gz	Fastqsanger.gz
	ERR10558148_2.fastq.gz	Fastqsanger.gz
	ERR10558149_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

Illumina cleaned reads from ME/CFS VLP-enriched gut virome

Project description:Comprehensive profiling of the human gut virome in ME/CFS (I)

| PRJEB57952 | ENA

Whole blood human transcriptome and virome analysis of ME/CFS patients experiencing post-exertional malaise following cardiopulmonary exercise testing

Project description:Myalgic encephalomyelitis / chronic fatigue syndrome (ME/CFS) is a syndrome of unknown etiology characterized by profound fatigue exacerbated by physical activity, also known as post-exertional malaise (PEM). Previously, we did not detect evidence of immune dysregulation or virus reactivation outside of PEM periods. Here we sought to determine whether cardiopulmonary exercise stress testing of ME/CFS patients could trigger such changes. ME/CFS patients (n=14) and matched sedentary controls (n=11) were subjected to cardiopulmonary exercise on 2 consecutive days and followed up to 7 days post-exercise, and longitudinal whole blood samples analyzed by RNA-seq. Although ME/CFS patients showed significant worsening of symptoms following exercise versus controls, with 8 of 14 ME/CFS patients showing oxygen consumption (V̇O2) on day 2, transcriptome analysis yielded only 6 differentially expressed gene (DEG) candidates when comparing ME/CFS patients to controls across all time points. None of the DEGs were related to immune signaling, and no DEGs were found in ME/CFS patients before and after exercise. Virome composition (P=0.746 by chi-square test) and number of viral reads (P = 0.098 by paired t-test) were not significantly associated with PEM. These observations do not support transcriptionally-mediated immune cell dysregulation or viral reactivation in ME/CFS patients during symptomatic PEM episodes.

2019-03-09 | GSE128078 | GEO

Whole blood gene expression in adolescent Chronic Fatigue Syndrom (CFS) by RNA-Seq

Project description:This study compared whole blood gene expression in CFS adolescent and healthy controls, and explored associations between gene expression and neuroendocrine markers, immune markers and clinical markers within the CFS group.

2018-03-16 | GSE98139 | GEO

Genome-wide analysis of gene expression in VECs and CFs after co-culture

Project description:The gene expression in vascular endothelial cells (VECs) and circulating fibrocytes (CFs) was tested either culturing alone or co-cultured. Our previous study showed that CFs inhibit both proliferation and apoptosis of VECs. In this present study, we co-cultured CFs and VECs in Transwell and tested the gene expression in CFs and VECs in order to delight the mechanism under which CFs affect the proliferation and apoptosis of VECs.

2017-12-30 | GSE108626 | GEO

DNA methylome modifications in ME/CFS

Project description:Examination of DNA methylome patterns in a larger cohort of ME/CFS samples using the Illumina Infinium HumanMethylation450 Beadchip Array

2017-03-15 | GSE93266 | GEO

Project description:ME/CFS virome

| PRJNA978316 | ENA

Bacillus methanolicus strain:CFS

Project description:Genome sequencing of Bacillus methanolicus CFS

| PRJNA428452 | ENA

Immune Exhaustion in ME/CFS and long COVID

Project description:Gene expression analysis of RNA was performed using the commercially available NanoString® nCounter Immune Exhaustion gene expression panel (NanoString Technologies, Seattle, WA, USA). This panel contains 785 genes to elucidate mechanisms behind T cell, B cell and NK cell exhaustion in disease. Ribonucleic acid (RNA) was extracted from peripheral blood mononuclear cells (PBMCs) isolated from ME/CFS (n=14), long COVID (n=15), and healthy control (HC; n=18) participants. ME/CFS participants were included according to Canadian Consensus Criteria for ME. Long COVID participants were eligible according to the working case definition for Post COVID-19 Condition published by the World Health Organization.

2024-11-06 | GSE275334 | GEO

DNA methylome modifications and subtyping in ME/CFS

Project description:Examination of DNA methylome patterns for potential subtypes in a larger cohort of ME/CFS samples using the Illumina Infinium HumanMethylation450 Beadchip Array Bisulfite-converted DNA from 25 samples were hybridised onto the Illumina Infinium HumanMethylation450 Beadchip Array

2017-12-31 | GSE102504 | GEO

The identification of miRNA biomarkers in CFS/ME peripheral blood samples

Project description:Chronic Fatigue Syndrome (CFS/ME) is a complex multisystem disease, with a pathogenesis that is undetermined. A large cohort of genes demonstrating altered expression in CFS/ME implicates the role of translational regulatory molecules, microRNA (miRNA), in the pathogenesis of this disease. We aimed to define the changes in microRNA expression in peripheral blood mononuclear cell (PBMC) samples in CFS/ME patients. miRNA expression was analysed in PBMC samples taken from CFS/ME patients and healthy controls, using the Ambion Bioarray V1. miRNA demonstrating differential expression were validated by qRT-PCR and analysed in an independent patient cohort in fractionated blood cell populations. The targets of miRNA hsa-miR-99b and hsa-miR-330-3p were then identified by gene expression analysis after transfection into primary NK cells.Microarray analysis identified differential expression of 34 miRNA, all of which were up-regulated. Four of the 34 miRNA had confirmed expression changes by qRT-PCR. Fractionating PBMC samples by cell type from an independent patient cohort identified changes in miRNA expression in NK-cells, B-cells and monocytes with the most significant abnormalities occurring in NK cells. Transfecting primary NK cells with hsa-miR-99b and hsa-miR-330-3p, respectively, resulted in gene expression changes consistent with NK cell activation and diminished cytotoxicity.This study demonstrates altered microRNA expression in the peripheral blood mononuclear cells of CFS/ME patients, which are potential diagnostic biomarkers. The greatest degree of miRNA deregulation was identified in NK cells with targets consistent with cellular activation and altered effector function.

2015-10-01 | GSE70371 | 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