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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 
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 
ProteomicsProteomics analysis of tumor antigens in allogenic tumor cell lysate and pancreatic tumor tissue.
Deep-proteome profiling of allogenic cell lysates and pancreatic ductal adenocarcinoma (PDAC) tissue sample with the aim to detect relevant tumor antigens (as described in Cheever et al. 2009, and directly linked to Lau et al., 2022).
ORGANISM(S): Homo sapiens (Human) 
2022-08-17 | PXD032800 | Pride
Human Mudpit Tumor antigens 
ProteomicsAutologous Dendritic Cells Loaded with Allogenic Tumor Lysate for Surgically Resected Pancreatic Cancer Patients. Rationale and Clinical Results of a Phase II Study (REACtiVe Trial)
Determination of shared antigens in Pancreatic ductal adenocarcinoma (PDAC) tumor lysate and the allogeneic tumor drug product. The list of tumor antigenes was thereby dervied from preceeding RNA and literature research (e.g. [Cheevers et al 2009](https://europepmc.org/article/MED/19723653)).
ORGANISM(S): Homo sapiens (Human) 
2022-08-17 | PXD025210 | Pride
Dendritic cells Immunotherapy T cells Pancreatic adenocarcinoma 
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 
ProteomicsNovel antibody-peptide binding assay indicates presence of immunoglobulins against EGFR phospho-site S1166 in high-grade glioma.
The project’s aim was to develop and test the applicability of a method to determine the presence of serum immunoglobulins against specific autoantibodies. The method combined immunoglobulin G enrichment (using Melon Gel), molecular weight filtration, and targeted mass spectrometry and the feasibili...
ORGANISM(S): Bos taurus (Bovine) Homo sapiens (Human) 
2022-06-09 | PXD032844 | Pride
Glioblastoma Melon gel Peptide antigen Autoantibodies Immunoglobulin g 
ProteomicsIdentification of novel CSF biomarkers in GRN-associated frontotemporal dementia by proteomics
Frontotemporal dementia is the second most common form of presenile dementia and autosomal dominant inheritance is present in 20-30% of cases, with mutations in granulin (GRN) as a major cause. The exact pathophysiological mechanism by which GRN mutations lead to neurodegeneration is poorly understo...
ORGANISM(S): Homo sapiens (Human) 
2019-04-30 | PXD012178 | Pride
Proteomics Mass spectrometry Frontotemporal dementia Biomarkers Progranulin 
ProteomicsIdentification of novel CSF biomarkers in GRN-associated frontotemporal dementia by proteomics
Frontotemporal dementia is the second most common form of presenile dementia and autosomal dominant inheritance is present in 20-30% of cases, with mutations in granulin (GRN) as a major cause. The exact pathophysiological mechanism by which GRN mutations lead to neurodegeneration is poorly understo...
ORGANISM(S): Homo sapiens (Human) 
2019-04-29 | PXD012179 | Pride
Proteomics Prm Mass spectrometry Frontotemporal dementia Biomarkers Progranulin 
ProteomicsNeurodegeneration and humoral response proteins in cerebrospinal fluid associate with pediatric-onset multiple sclerosis -- Discovery
The pathogenesis of multiple sclerosis (MS) remains to be elucidated. Pediatric-onset MS (POMS) represents the earliest stage of the disease. CSF proteins in POMS may therefore provide causal information. Therefore, the aim of the current study was to analyze CSF proteins in children with an initial...
ORGANISM(S): Homo sapiens (Human) 
2022-09-30 | PXD031004 | Pride
Proteomics Proteins Mass spectrometry Cerebrospinal fluid Multiple sclerosis Pediatrics 
ProteomicsNeurodegeneration and humoral response proteins in cerebrospinal fluid associate with pediatric-onset multiple sclerosis -- Validation
The pathogenesis of multiple sclerosis (MS) remains to be elucidated. Pediatric-onset MS (POMS) represents the earliest stage of the disease. CSF proteins in POMS may therefore provide causal information. Therefore, the aim of the current study was to analyze CSF proteins in children with an initial...
ORGANISM(S): Homo sapiens (Human) 
2022-09-30 | PXD031022 | Pride
Proteomics Proteins Mass spectrometry Cerebrospinal fluid Multiple sclerosis Pediatrics 
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