Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome profiling of classical monocytes in ME/CFS post exercise challenge

ABSTRACT: Transcriptome profiling of classical monocytes in ME/CFS post exercise challenge

PROVIDER: PRJNA884705 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR21727660_1.fastq.gz	Fastqsanger.gz
	SRR21727660_2.fastq.gz	Fastqsanger.gz
	SRR21727661_1.fastq.gz	Fastqsanger.gz
	SRR21727661_2.fastq.gz	Fastqsanger.gz
	SRR21727662_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 16

Similar Datasets

Transcriptome profiling of classical monocytes in ME/CFS post exercise challenge

Project description:We collected classical monocytes from frozen PBMCs of healthy controls and ME/CFS cases for bulk RNA-seq. PBMCs were collected 24h after participants conducted a cardiopulmonary exercise test (CPET).

2024-01-16 | GSE214282 | GEO

Single-cell transcriptomics of the immune system in ME/CFS at baseline and following symptom provocation

Project description:ME/CFS is a serious and poorly understood disease. To understand immune dysregulation in ME/CFS, we used single-cell RNA-seq (scRNA-seq) to examine immune cells in cohorts of patients and controls. Post-exertional malaise (PEM), an exacerbation of symptoms following exercise, is a characteristic symptom of ME/CFS. Thus, to detect changes coincident with PEM, we also performed scRNA-seq on the same cohorts following exercise. At baseline, ME/CFS patients displayed dysregulation of classical monocytes suggestive of inappropriate differentiation and migration to tissue. We were able to identify both diseased and more normal monocytes within patients, and the fraction of diseased cells correlated with metrics of disease severity. Comparing the transcriptome at baseline and post-exercise challenge, we discovered patterns indicative of improper platelet activation from patients, with minimal changes elsewhere in the immune system. Taken together, these data identify immunological defects present at baseline in patients, and an additional layer of dysregulation following strenuous exercise.

2024-01-16 | GSE214283 | GEO

Transcriptome profiling of plasma-derived particles containing platelets in ME/CFS post exercise challenge

Project description:We profiled gene expression of pelleted material containing platelets from frozen plasma of healthy controls and ME/CFS cases for bulk RNA-seq, collected before and 24h after participants conducted a cardiopulmonary exercise test (CPET).

2024-01-16 | GSE236402 | GEO

Transcriptome profiling of plasma-derived particles containing platelets in ME/CFS post exercise challenge

Project description:Transcriptome profiling of plasma-derived particles containing platelets in ME/CFS post exercise challenge

| PRJNA990757 | 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

Comprehensive cell surface proteomics defines markers of classical, intermediate and non-classical monocytes

Project description:Monocytes are a critical component of the cellular innate immune system, and can be subdivided into classical, intermediate and non-classical subsets on the basis of surface CD14 and CD16 expression. Classical monocytes play the canonical role of phagocytosis, and account for the majority of circulating cells. Intermediate and non-classical cells are known to exhibit varying levels of phagocytosis and cytokine secretion, and are differentially expanded in certain pathological states. Characterisation of cell surface proteins expressed by each subset is informative not only to improve understanding of phenotype, but also to provide biological insight into function. Here we use highly multiplexed Tandem-Mass-Tag (TMT)-based mass spectrometry with selective cell surface biotinylation to characterise the classical monocyte surface proteome, then interrogate the phenotypic differences between each monocyte subset to identify novel protein markers.

2020-03-03 | PXD013832 | Pride

Transcriptome analysis of circulating monocytes in QFS and CFS compared to various control groups

Project description:Transcriptomes of circulating monocytes in Q fever fatigue syndrome (QFS) patients, chronic fatigue syndrome (CFS) patients, asymptomatic Q fever seropositive controls and healthy controls

2019-05-06 | GSE130353 | GEO

Donor non-classical monocytes recruit recipient classical monocytes from the spleen by activating donor alveolar macrophages

Project description:Donor non-classical monocytes recruit recipient classical monocytes from the spleen by activating donor alveolar macrophages

| PRJNA701602 | ENA

Effects of exercise on gene expression level in human monocytes

Project description:We tested the hypothesis on the mechanisms responsible for the early control of monocytes function by identifying a discrete set of genes in circulating monocytes that were altered by exercise. Exercise leads to a rapid change in the profile of gene expression in monocytes. Twelve healthy men (22-30 yr old) performed 10 2-min bouts of cycle ergometer exercise interspersed with 1-min rest at a constant work equivalent to about 82% of VO2max. A baseline blood sample was taken before the and immediately after the exercise. Monocytes were isolated from PBMC using a negative magnetic cell separation methods (Miltenyi Biotec Monocyte Isolation Kit II human #130-091-153 and the autoMACS√Ç¬Æ Pro Separator). Total RNA was extracted using TRIzol. For this study we used Affymetrix plus 2 (total of 24 chips).

2014-02-15 | E-GEOD-51835 | biostudies-arrayexpress

Effects of exercise on microRNA expression level in human monocytes

Project description:Exercise leads to a rapid change in the profile of gene expression in monocytes. We hypothesized that microRNA expression in circulating monocytes would also be affected by brief exercise.

2014-02-15 | GSE51836 | 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