Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Long COVID versus COVID recovered pilot study

PROVIDER: PRJNA1184005 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR31535847_1.fastq.gz	Fastqsanger.gz
	SRR31535847_2.fastq.gz	Fastqsanger.gz
	SRR31535848_1.fastq.gz	Fastqsanger.gz
	SRR31535848_2.fastq.gz	Fastqsanger.gz
	SRR31535849_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 27

Similar Datasets

Mass Spectrometry identifies temporal changes and hallmarks of Delayed Recovery in the COVID19 Neutrophil proteomes

Project description:High-resolution mass spectrometry and the parallel quantitative evaluation of thousands of proteins has been used to characterise the proteomes of peripheral blood neutrophils from >200 individuals. This work has comprehensively mapped neutrophil molecular changes associated with mild versus severe COVID19 and identified significant quantitative changes in more than 1700 proteins in neutrophils from patients hospitalised with COVID19 versus patients with non-COVID19 acute respiratory infections. The study identifies neutrophil protein signatures associated with COVID19 disease severity. The data also show that alterations in neutrophil proteomes can persist in fully recovered patients and identify distinct neutrophil proteomes in recovered versus non recovered patients. Our study provides novel insights into neutrophil responses during acute COVID-19 and reveal that altered neutrophil phenotypes persist in convalescent COVID19 infections.

2022-08-17 | PXD036082 | Pride

Mass Spectrometry identifies temporal changes and hallmarks of Delayed Recovery in the COVID19 Neutrophil proteomes part2

Project description:Mass Spectrometry identifies temporal changes and hallmarks of Delayed Recovery in the COVID19 Neutrophil proteomes MTD project_description High-resolution mass spectrometry and the parallel quantitative evaluation of thousands of proteins has been used to characterise the proteomes of peripheral blood neutrophils from >200 individuals. This work has comprehensively mapped neutrophil molecular changes associated with mild versus severe COVID19 and identified significant quantitative changes in more than 1700 proteins in neutrophils from patients hospitalised with COVID19 versus patients with non-COVID19 acute respiratory infections. The study identifies neutrophil protein signatures associated with COVID19 disease severity. The data also show that alterations in neutrophil proteomes can persist in fully recovered patients and identify distinct neutrophil proteomes in recovered versus non recovered patients. Our study provides novel insights into neutrophil responses during acute COVID-19 and reveal that altered neutrophil phenotypes persist in convalescent COVID19 infections.

2022-08-17 | PXD036089 | Pride

Immune cell proteomes of Long COVID patients have functional changes similar to those in Myalgic Encephalomyelitis/Chronic Fatigue Syndrome.

Project description:To investigate the pathophysiology of Long COVID (LC), a pilot study of patients and healthy controls has used quantitative proteomics to discover changes in peripheral blood mononuclear cell (PBMC) proteoms. The proteomes of LC patients and healthy controls were analysed by Sequential Window Acquisition of all Theoretical Fragment Ion Spectra-Mass Spectrometry (SWATH-MS).

2025-08-05 | PXD045508 | Pride

TCR profiling of COVID convalescent and healthy donor whole blood with nCounter

Project description:This study investigated the cellular immune response in people who had recovered from SARS-CoV2 infection(COVID-19).

2022-08-21 | GSE211394 | GEO

Whole Blood profiling of COVID convalescent and Healthy donors with nCounter

Project description:This study investigated the cellular immune response in people who had recovered from SARS-CoV2 infection (COVID-19).

2022-08-21 | GSE211378 | GEO

Sustained activation of the integrated stress response is a mediator of Long Covid.

Project description:Why some individuals recover from COVID-19, while others do not, remains unknown. Mitochondrial dysfunction has been identified as a hallmark of Long COVID, however, multiple mitochondria haplotypes exist in the human population. Here, we used two mouse models that share the same nuclear genome but differ in mitochondrial genomes and compare their recovery rate after SARS-CoV-2 infection. While in one model, mice recovered, in the other model, male mice did not recover. RNAseq analysis, over a post-infection time course, revealed activation of the integrated stress response (ISR), which is known to be activated during acute viral infection through the PKR kinase. Therefore, and as expected, in recovered mice, activation of the ISR is transient and restricted to the acute phase of infection. However, in mice that did not recover, the ISR shows a sustained activation at time points where viral particles are no longer detectable. Rather, the activation of the ISR correlates with the up-regulation of endogenous mitochondria derived dsRNA, which were recently shown to be the preferred substrate of the PKR kinase. Sustained activation of the ISR was confirmed in 3 independent datasets of Long COVID patients in human. We show that treatment with the ISR inhibitor, ISRIB, correlates with recovery in mice affected by Long COVID. Since ISRIB is currently tested in clinical trials for other conditions and is reported to improve symptoms associated with Long COVID such as memory lost, gut inflammation and cardiomyopathy in preclinical models, our data opens the possibility to explore ISRIB as an intervention for the treatment of Long COVID.

2026-07-31 | GSE336805 | GEO

Viral fallout: Semen proteome reveals COVID-19 dysregulates several biological processes linked to male reproductive function

Project description:The current global outbreak of COVID-19 has significantly impacted several organ systems. Male reproductive organs are among the potential targets of SARS-CoV-2 infection owing to the presence of abundant viral receptors; ACE2 and TMPRSS2 in the testis. However, the questions pertaining to the long term effects of SARS-CoV-2 infection on male fertility are still unanswered. For this study, we procured the semen samples of COVID-19 recovered patients and performed mass spectrometry based proteomic studies to understand the impact of the disease on the biological processes involved in reproductive health.

2022-04-04 | PXD026703 | Pride

Investigation of IgG-reactivity Profiles and Epitope Landscape in Divergent COVID-19 Trajectories and SARS-CoV-2 Variants using SARS-CoV-2 whole proteome peptide microarray

Project description:The objective of the study was to characterize the immunoreactivity profiles of IgG-reactive epitopes in COVID-19 patients with distinct disease trajectories as well as SARS-CoV-2-naïve sera, using a high-density SARS-CoV-2 whole proteome peptide microarray. The microarray comprised of a total of 5347 individual peptides, each consisting of 15 amino acids with an overlap of 13 amino acids printed in duplicate. The microarray also had a panel of the most relevant mutations from SARS-CoV-2 variants of concern like omicron, alpha, beta, gamma, delta, and others. This study consisted of 29 participants, including 10 naïve controls (5 pre-pandemic and 5 SARS-CoV-2 seronegative) and 19 RT-PCR-confirmed COVID-19 patients. The COVID-19 patients were stratified into two distinct cohorts based on their disease trajectories: the severe cohort (S), in which the patients presented moderate COVID-19 symptoms initially but eventually progressed toward severity; and the recovered cohort (R), in which severe COVID-19 patients progressed toward recovery. Our findings contribute to a deeper understanding of the immunopathogenesis of COVID-19 in patients with different disease trajectories, the effect of mutations on immunoreactivity, and potential cross-reactivity due to exposure to common cold viruses.

2025-03-31 | E-MTAB-14495 | biostudies-arrayexpress

Spatial Transcriptomics of the Epipharynx in Long COVID: Exploring SARS-CoV-2 Signalling Pathways and the Therapeutic Potential of Epipharyngeal Abrasive Therapy

Project description:10X VisiumHD spatial transcriptomics of epipharynx from three patients with long COVID and two control individuals without COVID-19.

2025-02-24 | E-MTAB-14669 | biostudies-arrayexpress

CYP19A1 mediated sex hormone metabolism promotes severe disease outcome in SARS-CoV-2 infected male golden hamsters

Project description:Male sex belongs to one of the risk factors for severe COVID-19 outcome. However, underlying mechanisms that could affect sex dependent disease outcome are yet unknown. Here, we identified the CYP19A1 gene encoding for the testosterone-to-estradiol metabolizing enzyme CYP19A1 (alias aromatase) as a host factor that contributes to worsened disease outcome in male hamsters. SARS-CoV-2 infection increases CYP19A1 transcription most prominently in the lungs of male animals, which correlates with reduced circulating testosterone and increased circulating estradiol levels. Dysregulated sex hormone levels in male golden hamsters are associated with reduced lung function compared to females. Treatment of SARS-CoV-2 infected hamsters with letrozole, a clinically approved CYP19A1 inhibitor, supported recovery of dysregulated sex hormone levels and was associated with improved lung function in male but not female animals compared to placebo controls. Whole-lung transcriptome analysis in letrozole treated versus placebo treated control groups revealed key pathways associated with improved lung health in males. To seek translation of these findings into humans, we analyzed autopsy-derived lung samples of COVID-19 cases from three independent study sites. We found that CYP19A1 transcription and protein expression is strongly elevated in the lungs of men who died with COVID-19 as compared to females or non-COVID-19 controls. Our findings highlight the role of the lung as a yet unrecognized but critical organ involved in metabolic responses against respiratory virus infections. Furthermore, inhibition of CYP19A1 by the clinically approved drug letrozole may pose a new therapeutic strategy to reduce poor long-term COVID-19 outcome.

2022-01-21 | E-MTAB-11162 | biostudies-arrayexpress

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