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ProteomicsA protein standard that emulates homology for the characterization of protein inference algorithms
A natural way to benchmark the performance of an analytical experimental setup is to use samples of known content, and see to what degree one can correctly infer the content of such a sample from the data. For shotgun proteomics, one of the inherent problems of interpreting data is that the measured...
ORGANISM(S): Escherichia Coli (ncbitaxon:562) 
MSV000084315 | MassIVE
ProteomicsLongitudinal Protein Profiling using Targeted Proteomics and Recombinant Standards
Spike-in of standards of known concentrations used in proteomics-based workflows is an attractive approach for both accurate and precise multiplexed protein quantification. Here, a quantitative method based on targeted proteomics analysis of plasma proteins using isotope-labelled recombinant standar...
ORGANISM(S): Homo Sapiens 
2021-03-15 | PXD020797 | panorama
ProteomicsAddressing the Protease Bias in Quantitative Proteomics
Protein quantification strategies using multiple proteases have been shown to deliver poor inter-protease accuracy in label-free mass spectrometry experiments. By utilizing six different proteases with different cleavage sites, this study explores the protease bias and its effect on accuracy and pre...
ORGANISM(S): Homo Sapiens 
PXD033574 | panorama
ProteomicsPan-cancer plasma proteome profiling using SIS recombinant protein fragments reveals downregulation of proteins interacting with immunoglobulins in multiple myeloma
Mass spectrometry based on Data Independent Acquisition (DIA) strategies has developed into powerful tools suitable for precision medicine applications. Assays performed in this setting provide confident protein identification and precise quantification on an absolute scale when combined with stable...
ORGANISM(S): Homo Sapiens 
PXD037946 | panorama
ProteomicsBrain Creatine Kinase as a biomarker for Alzheimer’s disease
The creatine-phosphocreatine cycle serves as a crucial temporary energy buffering system in the brain, regulated by brain creatine kinase (CKB). CKB, responsible for reversible phosphorylation of creatine, plays a pivotal role in maintaining ATP levels. Alzheimer's disease (AD) has been linked to in...
ORGANISM(S): Homo Sapiens 
PXD050060 | panorama
ProteomicsAssessing the role of trypsin in quantitative plasma- and single-cell proteomics towards clinical application
Mass spectrometry-based bottom-up proteomics is rapidly evolving and routinely applied in large biomedical studies. Proteases are a central component of every bottom-up proteomics experiment, digesting proteins into peptides. Trypsin has been the most widely applied protease in proteomics, due to it...
ORGANISM(S): Homo Sapiens 
PXD042450 | panorama
ProteomicsTargeted Proteomics Using Stable Isotope Labeled Protein Fragments Enables Precise and Robust Determination of Total Apolipoprotein(a) in Human Plasma
Lipoprotein(a), also known as Lp(a), is an LDL-like particle composed of apolipoprotein(a) (apo(a)) bound covalently to apolipoprotein B100. Plasma concentrations of Lp(a) are highly heritable and vary widely between individuals. Elevated plasma concentration of Lp(a) is considered as an independent...
ORGANISM(S): Homo Sapiens 
2023-02-17 | PXD026976 | panorama
ProteomicsAbsolute Quantification of Apolipoproteins Following Treatment with Omega-3 Carboxylic Acids and Fenofibrate Using a High Precision Stable Isotope-Labeled Recombinant Protein Fragments Based SRM Assay
Stable isotope-labeled standard (SIS) peptides are used as internal standards in targeted proteomics to provide robust protein quantification, which is required in clinical settings. However, SIS peptides are typically added post trypsin digestion and, as the digestion efficiency can vary significan...
ORGANISM(S): Homo Sapiens 
PXD013314 | panorama
ProteomicsMonitoring Biomarker Study in Becker Muscular Dystrophy using Data Independent Acquisition LC-MS/MS
Becker muscular dystrophy (BMD) is a rare and heterogenous form of dystrophinopathy caused by reduced expression of altered dystrophin protein. Gene therapies and exon-skipping therapies for the more severe form of dystrophinopathy, Duchenne muscular dystrophy (DMD), assume that disease progression ...
ORGANISM(S): Homo Sapiens 
2025-10-31 | PXD054253 | panorama
ProteomicsOrthogonal proteomics methods warrants development of Duchenne Muscular Dystrophy biomarkers
Background: Molecular components in blood, such as proteins, are used as biomarkers to detect or predict disease states, guide clinical interventions and aid in the development of therapies. While multiplexing proteomics methods promote discovery of such biomarkers, their translation to clinical use...
ORGANISM(S): Homo Sapiens 
PXD038089 | panorama
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