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ProteomicsB cell epitope mapping of SARS-CoV-2 spike vaccinated rabbits
This experiment aims to profile polyclonal antibody binding profiles in serum from vaccinated animals relative to antibody function in a virus neutralization assay. Rabbits received three vaccinations with a DNA vaccine encoding the spike protein of the SARS-CoV-2 index strain. Serum samples were se...
ORGANISM(S): Oryctolagus cuniculus 
2023-08-31 | E-MTAB-13040 | biostudies-arrayexpress
ProteomicsThe landscape of the SARS-CoV-2 HLA-peptidome
The human leukocyte antigen (HLA)-bound-viral antigens, serve as an immunological signature that can be selectively recognized by T cells. As viruses evolve by acquiring mutations, it is essential to identify a range of viral presented antigens. Utilizing HLA-peptidomics we Identified SARS-CoV-2-der...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2021-11-01 | MSV000088298 | MassIVE
ProteomicsProteotyping of SARS-CoV-2 viral peptides in nasal swab simili
Detection by tandem mass spectrometry of a specific subset of SARS-CoV-2 viral peptides to illustrate the potential of shotgun proteomics for clinical diagnostic.
ORGANISM(S): Betacoronavirus Sp. (ncbitaxon:1928434) 
2020-10-02 | MSV000086229 | MassIVE
TranscriptomicsscRNA-seq data related to Booster mRNA vaccination post-SARS-CoV-2 infection enhances functional qualities of T cell immunity
We performed a study investigating donors previously infected with SARS-CoV-2 during the first wave of the COVID-19 pandemic to understand how vaccination may reshape T cell populations formed after infection. 10 donors were investigated using single-cell RNA-sequencing consisting of a) 3 mild non-h...
ORGANISM(S): Homo sapiens 
2023-06-30 | E-MTAB-12716 | biostudies-arrayexpress
ProteomicsExtensive proteomic dataset of Vero E6 cells infected by Italy-INMI1 SARS-CoV-2 virus at Day 4 post-infection
Next-generation proteomics of Vero E6 cells infected by Italy-INMI1 SARS-CoV-2 virus for defining relevant viral peptides for detection. Cells from Day4 post-infection at 0.01 multiplicity of infection.
ORGANISM(S): Betacoronavirus Sp. (ncbitaxon:1928434) Chlorocebus Aethiops Aethiops (ncbitaxon:101841) 
2020-05-29 | MSV000085509 | MassIVE
ProteomicsTracheal aspirate proteome from hospitalized patients infected with SARS-CoV-2
Tracheal aspirate was collected from intubated patients with SARS-CoV-2 infections or for reasons not related to COVID-19 (controls). The proteins were extracted using the MPLEx method. Proteins were digested with trypsin and analyzed by LC-MS/MS on a Thermo Q Exactive HF-X. Data was searched with M...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2022-06-06 | MSV000089614 | MassIVE
ProteomicsDetection of SARS-CoV-2 in nasal swabs using MALDI-MS
Detection of SARS-CoV-2 using RT-PCR and other advanced methods can achieve high accuracy. However, their application is limited in countries that lack sufficient resources to handle large-scale testing during the COVID-19 pandemic. Here, we describe a method to detect SARS-CoV-2 in nasal swabs usin...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000086175 | MassIVE
GenomicsSARS-CoV-2 escapes CD8 T cell surveillance via mutations in MHC-I restricted epitopes [10x]
CD8+ T cell immunity to SARS-CoV-2 has been implicated in COVID-19 severity and virus control. Here, we identified non-synonymous mutations in MHC-I restricted CD8+ T cell epitopes after deep sequencing of 747 SARS-CoV-2 virus isolates. Mutant peptides exhibited diminished or abrogated MHC-I binding...
EGAS00001005060 | EGA
2019 novel coronavirus infection 2019-nCoV infection coronavirus disease 2019 COVID-19 SARS-coronavirus 2 SARS-CoV-2 severe acute respiratory syndrome coronavirus 2 
ProteomicsAffinity purification mass spectrometry analysis of SARS-CoV-2 and SARS-CoV proteins in A549 cells
To determine the cellular binding partners of SARS-CoV-2 and SARS-CoV, A459 cells were transduced with lentiviruses expressing HA-tagged virus proteins and subjected to affinity purification mass spectrometry analysis.
ORGANISM(S): Homo sapiens (Human) 
2020-07-14 | PXD020222 | Pride
Sars-cov-2  sars-cov  apms  a549 cells 
ProteomicsData, reagents, assays and merits of proteomics for SARS-CoV-2 research and testing
As the SARS-CoV-2 pandemic continues to spread, thousands of scientists around the globe have changed research direction to understand better how the virus works and to find out how it may be tackled. To facilitate proteomic research on SARS-CoV-2, we presents deep-scale proteomes of common cell lin...
ORGANISM(S): Chlorocebus Sabaeus (ncbitaxon:60711) Chlorocebus Aethiops (ncbitaxon:9534) Homo Sapiens (ncbitaxon:9606) 
2020-07-17 | MSV000085774 | MassIVE
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