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ProteomicsProximity biotinylation and LC-MSMS identification of the molecular microenvironment of coronavirus replication complexes
To investigate virus-host interactions at the site of coronavirus replication, we developed a biotin-based proximity labelling approach by engineering a promiscuous biotin ligase, BirA-R118G, within the coronavirus replication and transcription complex (RTC). BirA-R118G was fused to non-structural p...
ORGANISM(S): Murine hepatitis virus strain A59 Mus musculus (Mouse) 
2019-01-16 | PXD009975 | Pride
L929 mouse fibroblast Lc-msms Viral replication complex Bira-r118g Mouse hepatitis virus Bioid 
ProteomicsProximity labeling and LC-MS/MS based identification of the stress granule microenvironment induced by different viruses
To dissect and compare the protein composition of stress granules formed during infections with two different RNA viruses as well as oxidative stress, we developed a recombinant mouse fibroblast cell line stably expressing a fusion protein of the stress granule marker G3BP1 with APEX2 and GFP. When ...
ORGANISM(S): Mus musculus (Mouse) 
2026-08-07 | PXD077432 | Pride
Proximity labeling Mouse hepatitis virus Semliki forest virus Stress granules 
Genomics5a9f4bd6-d795-47e9-9690-979bf5b1df6b - samples
The data contains single-cell gene sequencing data (10x Genomics) from FACS-purified CD8 T lymphocytes from two Austrian patients. The cells were stimulated with one MHC class I peptides obtained from a common (wild type) variant and an emerging mutant variant of the SARS-Cov-2 virus. Then the samp...
EGAD00001006995 | 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 
Genomics5c638551-978c-4e80-b87e-d669d6b7069e - samples
Full information about the T cell receptor (CR) variable regions found in the sequences of the vdj region. Columns: barcode is_cell contig_id high_confidence length chain v_gene d_gene j_gene c_gene full_length productive cdr3 cdr3_nt reads umis raw_clonotype_id raw_consensus_id
EGAD00001008109 | 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 
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 
GenomicsCCRI COVID Patient Data Access Committee
Data Access Committee EGAC00001001989
EGAC00001001989 | EGA
ProteomicsImpact of de novo variants in the PSMC5 coding the AAA-ATPase proteasome subunit PSMC5/Rpt6 on the protein pattern of patient-derived primary T-cells in comparison to their wild-type counterparts.
To better understand the cellular consequences of mutations in the AAA-ATPase proteasome subunit PSMC5/Rpt6, we performed a mass spectrometry-based comparative analysis of the T-cell proteome of subjects with PSMC5 mutations to that of their wild-type counterparts.
ORGANISM(S): Homo sapiens (Human) 
2025-08-07 | PXD048558 | Pride
Protein homeostasis Psmc5 variants Proteasome Primary t-cells 
ProteomicsUnveiling the crucial neuronal role of the proteasomal ATPase subunit gene PSMC5 in neurodevelopmental proteasomopathies
Neurodevelopmental proteasomopathies represent a distinctive category of neurodevelopmental disorders (NDD) characterized by genetic variations within the 26S proteasome, a protein complex governing eukaryotic cellular protein homeostasis. In our comprehensive study, we identified 23 unique variants...
ORGANISM(S): Homo sapiens (Human) 
2025-08-04 | PXD058728 | Pride
Human Dia-pasef Bottom-up Immunopurification lc-ms Proteasome Neurodevelopmental disorders 
UnknownInvestigating the neuronal role of the proteasomal ATPase subunit gene PSMC5 in neurodevelopmental proteasomopathies.
Not available
S-EPMC12658096 | biostudies-literature
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