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ProteomicsIdentification of a collagen marker in urine improves the detection of colorectal liver metastases
Previously, we reported that a combination of a collagen alpha-1(I) natural occurring peptide (NOP) AGPP(-OH)GEAGKP(-OH)GEQGVP(-OH)GDLGAP(-OH)GP (AGP) and serum carcinoembryonic antigen (CEA) has the potential to detect colorectal liver metastases (CRLM). The combined method needs to be adapted to i...
ORGANISM(S): Homo sapiens (Human) 
2019-11-15 | PXD013533 | Pride
Logistic regression model Colon cancer Colorectal cancer Prm Collagen Colorectal liver metastases Mass spectrometry Natural occurring peptides Urine 
ProteomicsIntegrating serum protein electrophoresis with mass spectrometry, a new workflow for M-protein detection and quantification
Serum protein electrophoresis (SPE) and immunofixation electrophoresis (IFE) are standard tools for multiple myeloma (MM) routine diagnostics. M-protein is a biomarker for MM that can be quantified with SPE and characterized with IFE. We have investigated combining SPE/IFE with targeted mass spectro...
ORGANISM(S): Homo sapiens (Human) 
2020-01-07 | PXD016325 | Pride
Serum protein electrophoresis Immunofixation electrophoresis Targeted mass spectrometry Multiple myeloma M-protein 
ProteomicsIdentification of a collagen marker in urine improves the detection of colorectal liver metastases
Previously, we reported that a combination of a collagen alpha-1(I) natural occurring peptide (NOP) AGPP(-OH)GEAGKP(-OH)GEQGVP(-OH)GDLGAP(-OH)GP (AGP) and serum carcinoembryonic antigen (CEA) has the potential to detect colorectal liver metastases (CRLM). The combined method needs to be adapted to i...
ORGANISM(S): Homo sapiens (Human) 
2019-11-15 | PXD013705 | Pride
Logistic regression model Colon cancer Colorectal cancer Prm Collagen Colorectal liver metastases Mass spectrometry Natural occurring peptides Urine 
ProteomicsRetrospective longitudinal monitoring of multiple myeloma patients by mass spectrometry using archived serum protein electrophoresis gels and de novo sequence analysis
M-proteins are antibody molecules produced by a clone of Multiple Myeloma cells. Thus, they are used as a disease activity marker. Traditionally, serum protein electrophoresis gels (SPEP) are used to quantify M-proteins. While effective for diagnostics, sensitivity of SPEP is limited. Here, we demon...
ORGANISM(S): Homo Sapiens 
PXD034406 | panorama
ProteomicsRapid detection of beta-lactam, aminoglycoside and fluoroquinolone resistance mechanisms in blood cultures positive for E. coli or K. pneumoniae using targeted LC-MS/MS
New and rapid antimicrobial susceptibility/resistance testing methods are required for bacteria from positive blood cultures. In the current study we developed and evaluated a targeted LC-MS/MS assay for the detection of beta-lactam, aminoglycoside and fluoroquinolone resistance mechanisms in blood ...
ORGANISM(S): Klebsiella pneumoniae JH1 Klebsiella variicola At-22 Acinetobacter sp. PM-14 Escherichia coli 
2022-07-01 | PXD025365 | Pride
Blood cultures Gyra E. coli Liquid chromatography-mass spectrometry Sepsis Qnr proteins Parallel reaction monitoring Aminoglycoside modifying enzymes K. pneumoniae 16s ribosomal rna methyltransferases Beta-lactamases Antimicrobial resistance 
ProteomicsApplying log-normal peak fitting to parallel reaction monitoring data analysis.
To support quantitative data analysis, we have developed a software, peakfit, that fits acquired chromatographic data to the log-normal peak equation and reports the calculated peak parameters. To demonstrate the capabilities of this approach, we provide hereby four example datasets: (1) 15 QCs of a...
ORGANISM(S): Homo sapiens (Human) 
2021-07-26 | PXD026875 | Pride
Data processing Peak modelling Peak fitting Parallel reaction monitoring Software tool 
ProteomicsDynamic monitoring of myeloma minimal residual disease with targeted mass spectrometry
Serum samples from multiple myeloma (MM) patients are collected regularly for conventional tests to quantify the M-protein longitudinally. However, the limited sensitivity of conventional tests makes quantification of minimal residual disease (MRD) difficult. MRD can be quantified with highly sensit...
ORGANISM(S): Homo Sapiens 
2023-02-27 | PXD038370 | panorama
ProteomicsAlteration of protein expression and spliceosome pathway activity during Barrett’s carcinogenesis.
Esophageal adenocarcinoma (EAC) is a common and aggressive type of cancer and Barrett’s esophagus (BE) is a known precursor lesion and the strongest risk factor for EAC. Prediction of risk is currently based on histologic examination which is challenged by problems such as inter-observer variability...
ORGANISM(S): Homo sapiens (Human) 
2021-09-09 | PXD020903 | Pride
Barrett’s esophagus Laser capture micro-dissection Mass spectrometry Bottom-up proteomics Dysplastia Epithelial cells Adenocarcinoma 
ProteomicsImproved detection of tryptic immunoglobulin variable region peptides by chromatographic and gas-phase fractionation techniques.
Circulating antibodies provide valuable information about an individual’s immune status and constitute a significant portion of the human plasma proteome. Proteomic analysis of plasma is challenged by the large dynamic concentration range of plasma proteins, including antibodies. Peptide fractionati...
ORGANISM(S): Homo sapiens (Human) 
2024-08-09 | PXD046072 | Pride
Peptide fractionation Antibody Mass spectrometry Immune repertoire Multi-dimensional chromatography Ion-mobility Bottom-up proteomics De novo sequencing Plasma proteomics 
ProteomicsIdentification of barrier-specific proteins in the human brain
We present a proteomic analysis of the basal lamina of the human BBB. We combined laser capture microdissection with shotgun proteomics for selective enrichment and identification of specific proteins present in the cerebral microvasculature and arachnoidal vessels collected from normal human brain ...
ORGANISM(S): Homo sapiens (Human) 
2022-01-17 | PXD018602 | Pride
Blood-brain barrier Proteomics Mass spectrometry 
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