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TranscriptomicsAtypical DNA methylation of genes encoding cysteine-rich peptides in Arabidopsis thaliana
In plants, transposons and non-protein-coding repeats are epigenetically silenced by CG and non-CG methylation. This pattern of methylation is mediated in part by small RNAs and two specialized RNA polymerases, Pol IV and Pol V, in a process called RNA-directed DNA methylation. By contrast, many pr...
ORGANISM(S): Arabidopsis thaliana 
2012-11-22 | E-GEOD-34207 | biostudies-arrayexpress
ProteomicsDetection of mutated peptides of SARS-CoV-2 from COVID-19-infected patients
This project involves the identification of mutated peptides from swab and plasma samples using an in-house developed Mutant Peptide Database (MPD)
ORGANISM(S): Homo sapiens (Human) 
2023-05-10 | PXD029300 | Pride
Sars-cov-2 Mass spectrometry Mutant peptides Covid-19 
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 
TranscriptomicsDifferent gene expressions in root tips between CLE10 and CLE25 treatment
Cell–cell communication is critical for tissue and organ development. In plants, secretory CLAVATA3/EMBRYO SURROUNDING REGION-related (CLE) peptides function as intercellular signaling molecules in various aspects of tissue development. However, little is known about intracellular signaling pathways...
ORGANISM(S): Arabidopsis thaliana 
2010-09-03 | E-GEOD-19978 | biostudies-arrayexpress
ProteomicsIdentification of WT and mutant OSBPL2 interactors
Pathogenic OSBPL2 mutations led to almost identical truncated proteins, which formed cytoplasmic aggregates, we performed a proteomic analysis to understand the function of mutant OSBPL2 via the identification of its interactome.
ORGANISM(S): Homo sapiens (Human) 
2023-03-10 | PXD021514 | Pride
Proteomics Interactors Mutant protein 
ProteomicsExpansive Genomic Mapping of Mutant Peptides and Characterisation of Allelic Bias in Cancer Cell Lines
Investigation of non-synonymous mutation as a major driver for cancer is essential for discovery of biomarkers and therapeutics. Although, many cancer-associated mutations have been identified through genomics, there is a poor understanding of how they manifest in the proteome. In fact, detection of...
ORGANISM(S): Homo sapiens (Human) 
2025-12-17 | PXD044389 | Pride
ProteomicsTomato trifoliate mutant proteome
Tomato trifoliate 5 mutant exhibits high carotenoid and folate levels. However, the mechanisms governing high carotenoid and folate levels of the mutant are largely unknown. Therefore, a proteomic approach combined with metabolite profiling and gene expression was used to decipher the effect of muta...
ORGANISM(S): Solanum lycopersicum 
2022-08-12 | PXD027940 | Pride
Mature green Breaker and red ripe stages of ripening Carotenoids and folates. Tomato fruit proteome 
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 
TranscriptomicsWild type vs glnPA double mutant
This microarray experiment is part of a study addressing the importance of glutamine metabolism in Streptococcus pneumoniae for the virulence of this bacterium. To be able to gain more insight into the phenotype of a double mutant of glnA (TIGR 4 locus tag SP0502, encoding glutamine synthetase) and ...
ORGANISM(S): Streptococcus pneumoniae 
2010-05-26 | E-GEOD-9850 | biostudies-arrayexpress
Proteomicsproteome of different mutant strains of M. pneumoniae
This project or dataset comprises raw data of the proteome of different mutant strains of M. pneumoniae (∆mpn453; ∆mpn372; CV2 (∆mpn133∆mpn372); CV0 (WT_gp35) and ∆mpn133).The proteome of the strain was used to corroborate the genotype of the obtained mutants and to discard unspected changes in the ...
ORGANISM(S): Mycoplasma pneumoniae (strain ATCC 29342 / M129) 
2021-09-14 | PXD028011 | Pride
Mpn133 Mpn453 Mutant Mpn372 Mycoplasma pneumoniae 
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