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ProteomicsThe exposed proteomes of Brachyspira hyodysenteriae and B. pilosicoli
Applying a shotgun proteomics approach, we built a unique database of Brachyspira hyodysenteriae and B. pilosicoli peptides and proteins. A total of 148 LC-MS/MS runs were conducted on an Orbitrap instrument, and more than 29000 different peptides in cell supernatants and partially digested cell sus...
ORGANISM(S): Brachyspiraceae 
2016-07-05 | PXD003900 | Pride
Brachyspira Immunogenic proteins Exoproteome Shotgun proteomics Surfaceome 
ProteomicsShotgun Proteomics to characterize wastewater proteins
Wastewater has been extensively studied along the years. However, these studies have been focused on the analysis of small molecules. There are no studies about the proteins present in wastewater and let alone an established method to study them. We propose a method for the study of the proteins in ...
ORGANISM(S): Bos taurus (Bovine) Homo sapiens (Human) Mus musculus (Mouse) Gallus gallus (Chicken) Sus scrofa domesticus (domestic pig) Rattus norvegicus (Rat) 
2023-10-24 | PXD042445 | Pride
Proteomics High-resolution mass spectrometry (hrms). Sewage protein information mining (spim) Wastewater-based epidemiology (wbe) Wastewater Compartmentalized proteome 
ProteomicsTCellXTalk enables the detection of co-modified peptides for the study of protein post-translational modification cross-talk in T cells
Protein function is regulated by post-translational modifications (PTMs) that may act individually or interact with others in a phenomenon termed PTM cross-talk. Multiple databases have been dedicated to PTMs, including recent initiatives oriented to the in silico prediction of PTM interactions. The...
ORGANISM(S): Homo sapiens (Human) 
2018-09-19 | PXD010176 | Pride
Ptms Cross-talk Tcr activation T cells 
ProteomicsUrinary proteome in diabetic nephropathy
Urinary proteome was analyzed and quantified by Tandem Mass Tag (TMT) labeling followed by bioinformatics analysis to study DN pathophysiology and to identify biomarkers of clinical outcome. We included type 2 diabetic normotensive non-obese males with and without incipient DN (microalbuminuria). Sa...
ORGANISM(S): Homo sapiens (Human) 
2018-05-22 | PXD009303 | Pride
Human Urinary proteome Quantitative proteomics Diabetes 
ProteomicsPhosphoproteomics quantitative characterization in Jurkat E6.1 and Jurkat Gamma1.
Phosphorylation is a reversible post-translational modification, playing a vital role in protein function. In T cells, protein phosphorylation is the key mechanism regulating T cell receptor – driven signaling pathways. In order to gain insights into the phosphoproteome evolution of T cell activatio...
ORGANISM(S): Homo sapiens (Human) 
2015-11-10 | PXD002871 | Pride
Phosphorylation Cd3/cd28 costimulation Quantitative phosphoproteomics. Jurkat t cells Phospholipase c gamma 1 
ProteomicsLarge-scale filter-aided sample preparation method for the analysis of the ubiquitinome
Protein ubiquitination regulates key cellular functions including protein homeostasis and signal transduction. The digestion of ubiquitinated proteins with trypsin yields a glycine-glycine remnant bound to the modified lysine residue (K-ε-GG) that can be recognized by specific antibodies for immunoa...
ORGANISM(S): Homo sapiens (Human) 
2017-03-30 | PXD005421 | Pride
Ubiquitinome Large-scale Portein digestion Post-translational modifications Lfasp Proteome 
ProteomicsThe response to fasting and refeeding reveals functional regulation of lipoprotein lipase proteoforms
Lipoprotein lipase (LPL) is responsible for the intravascular catabolism of triglyceride-rich lipoproteins and plays a central role in whole-body energy balance and lipid homeostasis. As such, LPL is subject to tissue-specific regulation in different physiological conditions, but the mechanisms of t...
ORGANISM(S): Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey) 
2024-01-26 | PXD043704 | Pride
Lipoprotein lipase Lipid metabolism Proteoform Tissue-specific regulation 
ProteomicsTeleost spermatozoa can conduct de novo cytoplasmic and mitochondrial translation during post-testicular maturation
Translational silence of spermatozoa has long been considered the norm in animals. However, studies in mammals have shown that the mitochondrial ribosomal machinery is selectively activated during capacitation in the female reproductive tract, while cytoplasmic ribosomes remain inactive. Here, using...
ORGANISM(S): Sparus aurata 
2025-05-07 | PXD056370 | Pride
Proteomics Efferent duct Sperm motility Polysomes Fish Lc-ms/ms 
ProteomicsThe infThe inflammatory microenvironment changes the biological function of sEV by modifying the composition of their protein coronalammatory microenvironment changes the biological function of sEV by modifying the composition of their protein corona
A relevant part of the physiological functions of extracellular vesicles is conditioned by the protein corona attached to the surface. The composition of this corona is initially defined during their intracellular synthesis, but it can be modified subsequently by the interactions with the microenvir...
ORGANISM(S): Rattus rattus (Black rat) 
2025-05-07 | PXD057367 | Pride
Exosomes  corona  inflammation  pancreatitis  extracellular vesicles 
ProteomicsEpstein-Barr Virus+ B Cells in the Breast Cancer Immune Response: A Case Report.
Tumor-Infiltrating Lymphocytes (TILs) are composed by several immune subpopulations including NK, NKT, Tab, Tgd and B cells. Although some of these cells can have antitumoral activities, there is also a large number of cells which are not tumor-specific,known as bystander cells. These cells may not ...
ORGANISM(S): Homo sapiens (Human) 
2021-11-17 | PXD028646 | Pride
Cancer Tils Immunopeptidomics Tcr Tumor-infiltrating ebv+ b cells 
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