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ProteomicsCSF levels of Elongation Factor Tu is associated with increased mortality in human Streptococcus pneumoniae meningitis
Background Mortality from bacterial meningitis, predominately caused by Streptococcus pneumoniae, exceeds 50% in low and middle income countries in sub-Saharan Africa with high HIV prevalence. Underlying causes of high mortality are poorly understood. We examined the host and pathogen proteome in a...
ORGANISM(S): Homo sapiens (Human) 
2020-11-09 | PXD021268 | Pride
Cerebrospinal fluid Proteomics Hiv Mortality Streptococcus pneumoniae 
ProteomicsDecoding the absolute stoichiometric composition and structural plasticity of α-carboxysomes
Carboxysomes are anabolic bacterial microcompartments that play an essential role in carbon fixation in cyanobacteria and some chemoautotrophs. This self-assembling organelle encapsulates the key CO2-fixing enzymes, Rubisco, and carbonic anhydrase using a polyhedral protein shell that is constructed...
ORGANISM(S): Halothiobacillus neapolitanus c2 
2022-05-20 | PXD031420 | Pride
Carboxysomes 
ProteomicsLarge scale and significant expression from pseudogenes in Sodalis glossinidius - a facultative endosymbiont C4PR_LIV
The majority of bacterial genomes have high coding efficiencies, but there are an few genomes of the intracellular bacteria that have low gene density. The genome of the endosymbiont Sodalis glossinidius contains almost 50% pseudogenes containing mutations that putatively silence them at the genomic...
ORGANISM(S): Sodalis glossinidius 
2020-05-26 | PXD007068 | Pride
Proteomics Genomics Transcriptomics Proteogenomics 
ProteomicsDirect and Absolute Quantification of over 1800 Yeast Proteins via Selected Reaction Monitoring HUB_MAN C4PR_LIV
Defining intracellular protein concentration is critical in molecular systems biology. Although strategies for determining relative protein changes are available, defining robust absolute values in copies per cell has proven significantly more challenging. Here we present a reference dataset quantif...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2015-12-11 | PXD002694 | Pride
Absolute quantification  selected reaction monitoring  srm  stable-isotope labelling  yeast  tandem quadrupole  qconcat 
ProteomicsA multi-condition inter-strain transcriptomic compendium identifies phenotypic differences between European and African Salmonella pathovariants (C4PR_LIV)
Salmonella Typhimurium ST313 is associated with invasive nontyphoidal salmonellosis (iNTS) disease in sub-Saharan Africa. Using ST313 isolate, D23580, and the well-characterized ST19 isolate 4/74, that causes gastroenteritis across Europe, we generated transcriptomic data from sixteen infection-rele...
ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium str. D23580 
2019-01-11 | PXD011041 | Pride
Salmonella typhimurium Trna synthetases Proteomics Rna-seq St313 Plasmids Melibiose Genomics Functional transcriptomics. Comparative transcriptomics 
ProteomicsProteomic analysis of dietary restriction in yeast reveals a role for Hsp26 in lifespan extension C4PR_LIV
Dietary restriction (DR) has been shown to increase lifespan in organisms ranging from yeast to mammals. This suggests that the underlying mechanisms may be evolutionarily conserved. Indeed, upstream signalling pathways, such as TOR, are strongly linked to DR-induced longevity in various organisms. ...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-02-17 | PXD025004 | Pride
Mitochondria Chaperone Calorie restriction Saccharomyces cerevisiae Aging 
ProteomicsThe heparin-binding proteome in nomal pancreas and murine experimental acute pancreatitis, C4PR_LIV
Acute pancreatitis (AP) is an acute inflammation of the pancreas, mainly caused by gallstones and alcohol, and driven by changes in communication between cells. Heparin-binding proteins (HBPs) of the plasma membrane and extracellular matrix play a central role in cell communication. Therefore, we us...
ORGANISM(S): Mus musculus (Mouse) 
2018-12-11 | PXD001950 | Pride
Pancreas Mouse Lcmsms 
ProteomicsUse of the Polo-like kinase 4 (PLK4) inhibitor centrinone to investigate intracellular signaling networks using SILAC-based phosphoproteomics_C4PR
Polo-like kinase 4 (PLK4) is the master regulator of centriole duplication in metazoan organisms. Catalytic activity and protein turnover of PLK4 are tightly coupled in human cells, since changes in PLK4 concentration and catalysis have profound effects on centriole duplication and supernumerary cen...
ORGANISM(S): Homo sapiens (Human) 
2021-06-14 | PXD018704 | Pride
Mass spectrometry Centrinone  phosphoproteomics Inhibitor Phosphorylation  substrate Plk4 
ProteomicsMesenchymal Stromal Cell secretome is affected by tissue source and donor age.
Variation in Mesenchymal Stromal Cell (MSC) function depending on their origin is problematic, as it may confound clinical outcomes of MSC therapy. Current evidence suggests that the therapeutic benefits of MSCs is primarily attributed to secretion of various biologically active factors (secretome)....
ORGANISM(S): Equus caballus (Horse) 
2024-01-26 | PXD039652 | Pride
Proteomics Donor Mesenchymal stromal cells Equine Secretome Age 
ProteomicsA comparison of human skeletal muscle cell maturation in 2D versus 3D culture: A quantitative proteomic study C4PR_LIV
Background Three-dimensional (3D) bioengineered models of human skeletal muscle are a promising approach for studying muscle development, function and disease in vitro. These models more closely resemble the complexity of native muscle tissue than two-dimensional (2D) monolayer culture and allow for...
ORGANISM(S): Homo sapiens (Human) 
2025-06-23 | PXD061227 | Pride
Bioengineering In vitro models Skeletal muscle Maturation Proteomics 3d culture Hydrogel 
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