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TranscriptomicsDeciphering the molecular immune response to COVID-19 using single cell multi-omics
Multi-omics single-cell profiling of surface proteins, gene expression and lymphocyte immune receptors from hospitalised COVID-19 patient peripheral blood immune cells and healthy controls donors. Identification of the coordinated immune cell compositional and state changes in response to SARS-CoV-2...
ORGANISM(S): Homo sapiens 
2021-03-17 | E-MTAB-10026 | biostudies-arrayexpress
MetabolomicsDifferential role of sphingomyelin in influenza virus, rhinovirus and SARS-CoV-2 infection of Calu-3 cells
Host cell lipids play a pivotal role in the pathogenesis of respiratory virus infection. However, a direct comparison of the lipidomic profile of influenza virus and rhinovirus infections is lacking. In this study, we first compared the lipid profile of influenza virus and rhinovirus infection in a ...
2022-11-15 | MTBLS2352 | MetaboLights
ProteomicsThe Global Phosphorylation Landscape of SARS-CoV-2 Infection
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the causative agent of the coronavirus disease 2019 (COVID-19) pandemic, has infected over 3 million people worldwide and caused over 200,000 deaths since it emerged in late 2019. There is an urgent need to develop therapies that can limi...
ORGANISM(S): Chlorocebus Aethiops (ncbitaxon:9534) 
2020-07-15 | MSV000085759 | MassIVE
TranscriptomicsOncolytic Reovirus mediates innate-driven SARS-CoV-2 elimination in the absence of cell toxicity
Interplay between type I interferon (IFN) driven innate responses and viral antagonism strongly influences SARS-CoV-2 transmission and the COVID-19 disease course. Hence, variant adaptation includes diminished induction of IFN stimulated genes (ISG) and/or evasion of their effector functions. Exogen...
ORGANISM(S): Homo sapiens 
2026-04-15 | E-MTAB-16855 | biostudies-arrayexpress
TranscriptomicsA distinct effector B cell population drives autoantibody production in SARS-CoV-2 infection
This study included single-cell RNA-seq and scATAC-seq data from PBMCs from 12 COVID-19 individuals at acute infection.
ORGANISM(S): Homo sapiens 
2026-08-28 | E-MTAB-13745 | biostudies-arrayexpress
ProteomicsLongitudinal multi-omics analysis of convalescent individuals with respiratory sequelae 6–36 months after COVID-19
This study presents a longitudinal multi-omics analysis of COVID-19 convalescents with respiratory sequelae, spanning 6–36 months post-infection. The integrating proteomic and metabolomic profiling uncovers persistent molecular alterations, impaired diffusing capacity for carbon monoxide, and propos...
ORGANISM(S): Homo Sapiens 
2025-02-23 | PXD061113 |
TranscriptomicsAtherosclerosis licenses for an exceeding immune response in COVID-19 disease by interferon priming in circulating myeloid cells
Single-cell RNA sequencing revealed a dysregulated myeloid immune response with hyperinflammatory and immunosuppressive features in patients with ASCVD and moderate COVID-19. Assay for Transposase-Accessible Chromatin sequencing and in-vitro experiments with isolated monocytes infected with SARS-CoV...
ORGANISM(S): Homo sapiens 
2025-01-15 | E-MTAB-16472 | biostudies-arrayexpress
TranscriptomicsPROS1 released by lung basal cells limits inflammation in epithelial and monocytes during SARS-CoV-2 infection
The data here represent two Single-Cell experiments performed to understand the roles of PROS1 in bronchial epithelial cells and monocytes, infected by SARS-CoV-2. The CVR EXP5 contains epithelial cultures grown on Air-Liquid Interface as mock or infected by the delta variant of SARS-CoV-2 (Delta B....
ORGANISM(S): Homo sapiens 
2025-10-17 | E-MTAB-14405 | biostudies-arrayexpress
TranscriptomicsHigh titers and low fucosylation of early anti-SARS-CoV-2 IgG promote hyper-inflammation by anti-inflammatory macrophages (MIL10)
Patients diagnosed with coronavirus disease 2019 (COVID-19) mostly become critically ill around the time of activation of the adaptive immune response. Here, we provide evidence that antibodies play a role in the worsening of disease at the time of seroconversion. We show that early phase severe acu...
ORGANISM(S): Homo sapiens 
2021-04-30 | E-MTAB-10431 | biostudies-arrayexpress
TranscriptomicsRNA-seq of SARS-CoV-2-infected human primary hepatocyte-derived spheroids upon interferon a2 and baricitinib treatment
Biological replicates of liver spheroids derived from primary hepatocytes were treated with IFNa2 and/or baricitinib for 24 h and subsequently infected with Sars-CoV-2. The cells were harvested 48 h time after infection. Total RNA was extracted and sequenced with a strand-specific paired end RNA-seq...
ORGANISM(S): Homo sapiens 
2020-11-18 | E-MTAB-9711 | biostudies-arrayexpress
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