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ProteomicsToward industrial C8 production: Oxygen intrusion drives renewable n caprylate production from ethanol and acetate via intermediate metabolite production
Previous bioreactor studies achieved high volumetric n caprylate (i.e., n octanoate) production rates and selectivities from ethanol and acetate with chain elongating microbiomes. However, the metabolic pathways from the substrates to n caprylate synthesis were unclear. We operated two n caprylate p...
ORGANISM(S): bioreactor metagenome 
2025-05-24 | PXD054148 | Pride
N caprylate Bioreactor Metaproteomic 
ProteomicsA Metaproteomic Workflow for Sample Preparation and Data Analysis Applied to Mouse Faeces: 3
Many diseases have been associated with gut microbiome abnormalities. The root cause of such diseases is not only due to bacterial dysbiosis, but also to change in bacterial functions, which are best studied by proteomic approaches. Although bacterial proteomics is well established, metaproteomics i...
ORGANISM(S): mouse gut metagenome Homo sapiens (Human) 
2022-02-16 | PXD021928 | Pride
Mus musculus Taxonomy Metaproteomics Metagenome 
ProteomicsTemporal Analysis of Protein Ubiquitylation and Phosphorylation During Parkin-dependent Mitophagy
Mitophagy, the selective degradation of mitochondria by autophagy, affects defective mitochondria following damage or stress. At the onset of mitophagy, parkin ubiquitylates proteins on mitochondrial outer membrane (MOM). While the role of parkin at the onset of mitophagy is well understood, less is...
ORGANISM(S): Homo sapiens (Human) 
2022-01-17 | PXD027586 | Pride
Quantitative proteomics Mitochondria Mitophagy Ubiquitin Parkin 
ProteomicsPhotoferrotroph R. palustris TIE-1
The underlying adaptations required by anoxygenic phototrophs to oxidize Fe(II), a potential stressor, are not well constrained. We used quantitative proteomics to compare cells of the photoferrotroph Rhodopseudomonas palustris TIE-1 grown photoautotrophically with Fe(II) or H2, and photoheterotroph...
ORGANISM(S): Rhodopseudomonas palustris TIE-1 
2018-06-25 | PXD009629 | Pride
Anoxygenic photosynthesis Oxidation Iron Photoferrotroph 
ProteomicsQuantitative proteomics links the intermediate filament nestin to vemurafenib resistance in melanoma cell lines
Targeted inhibition of mutated kinases using selective MAP kinase inhibitors in malignant melanoma often results in temporary improvement of the metastatic disease followed by rapid development of resistance. To gain insights in molecular processes that govern resistance, we performed SILAC-based qu...
ORGANISM(S): Homo sapiens (Human) 
2019-05-14 | PXD010683 | Pride
Cytoskeletal proteins Mass spectrometry Drug resistance Melanoma 
ProteomicsA Metaproteomic Workflow for Sample Preparation and Data Analysis Applied to Mouse Faeces: 1
Many diseases have been associated with gut microbiome abnormalities. The root cause of such diseases is not only due to bacterial dysbiosis, but also to change in bacterial functions, which are best studied by proteomic approaches. Although bacterial proteomics is well established, metaproteomics i...
ORGANISM(S): mouse gut metagenome 
2022-02-15 | PXD020695 | Pride
Mus musculus Taxonomy Metaproteomics Metagenome 
ProteomicsA Metaproteomic Workflow for Sample Preparation and Data Analysis Applied to Mouse Faeces: 5
The intestinal microbiota plays a key role in shaping host homeostasis by regulating metabolism, immune responses and behaviour. Its dysregulation has been associated with metabolic, immune and neuropsychiatric disorders and is accompanied by changes in bacterial metabolic regulation. Although prote...
ORGANISM(S): Eukaryota (eucaryotes) Bacteria Archaea Viruses 
2022-02-17 | PXD027306 | Pride
Mus musculus Taxonomy Metaproteomics Metagenome 
ProteomicsA Metaproteomic Workflow for Sample Preparation and Data Analysis Applied to Mouse Faeces: 4
A Metaproteomic Workflow for Sample Preparation and Data Analysis Applied to Mouse Faeces: 1 MTD project_description Many diseases have been associated with gut microbiome abnormalities. The root cause of such diseases is not only due to bacterial dysbiosis, but also to change in bacterial functions...
ORGANISM(S): mouse gut metagenome 
2022-02-16 | PXD021932 | Pride
Mus musculus Taxonomy Metaproteomics Metagenome 
ProteomicsA Metaproteomic Workflow for Sample Preparation and Data Analysis Applied to Mouse Faeces: 2
Many diseases have been associated with gut microbiome abnormalities. The root cause of such diseases is not only due to bacterial dysbiosis, but also to change in bacterial functions, which are best studied by proteomic approaches. Although bacterial proteomics is well established, metaproteomics i...
ORGANISM(S): mouse gut metagenome 
2022-02-15 | PXD020738 | Pride
Mus musculus Taxonomy Metaproteomics Metagenome 
ProteomicsAnalysis of Amino Acid Variants in Malignant Melanoma Cells Resistant to BRAF inhibition
Analysis of patient-specific nucleotide variants is a cornerstone of personalised medicine. Although only 2% of the genomic sequence is protein-coding, mutations occurring in these regions have the potential to influence protein structure and may have severe impact on disease aetiology. Of special i...
ORGANISM(S): Homo sapiens (Human) 
2021-11-04 | PXD018305 | Pride
Nucleotide sequencing Melanoma Mass spectrometry Proteogenomics Cancer Brafi resistance Phosphorylation 
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