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ProteomicsDiscovery and validation of novel protein biomarkers in ovarian cancer patient urine
Diagnosis of ovarian cancer at an early stage is the most important determinant of survival. Thus, there is a clear need for novel biomarkers to improve diagnostic and prognostics that may better inform on therapeutic strategies. We have conducted a discovery study using label-free quantitative mass...
ORGANISM(S): Homo sapiens (Human) 
2018-02-15 | PXD007962 | Pride
Urine Prm Ovarian cancer Lfq He4 Parallel reaction monitoring Label free quantitation 
ProteomicsLong-read Proteogenomics Internal Standard triggered PRM (LRP-IS-PRM)
Long-read proteogenomic data was used to create sample-matched protein database for WTC11 sample. This includes many potential alternative protein isoforms (major and minor isoforms) per gene. The IS-PRM method called Tomahto was tested versus DDA to demonstrate improved coverage of isoform-specific...
ORGANISM(S): Homo sapiens (Human) 
2024-07-17 | PXD050909 | Pride
Proteogenomics Is-prm Tomahto 
ProteomicsLong-read Proteogenomics Internal Standard triggered PRM (LRP-IS-PRM)
Long-read proteogenomic data was used to create sample-matched protein database for WTC11 sample. This includes many potential alternative protein isoforms (major and minor isoforms) per gene. The IS-PRM method called Tomahto was tested versus DDA to demonstrate improved coverage of isoform-specific...
ORGANISM(S): Homo sapiens (Human) 
2024-07-17 | PXD050904 | Pride
Proteogenomics Is-prm Tomahto 
ProteomicsWideband PRM: Highly Accurate and Sensitive Method for High-Throughput Targeted Proteomics
Targeted mass spectrometry (MS) approaches, which are powerful methods for uniquely and confidently quantifying a specific panel of proteins in complex biological samples, play a crucial role in validation and clinical translation of protein biomarkers discovered by global proteomic profiling. Commo...
ORGANISM(S): Homo sapiens (Human) 
2024-08-14 | PXD048271 | Pride
Prm Targeted proteomics Parallel reaction monitoring Absolute quantification 
ProteomicsIdentification and validation of stage-associated serum biomarkers in colorectal cancer_discovery phase H
Colorectal cancer (CRC) is one of the most prevalent and lethal cancer diseases worldwide. Here, we aimed to identify and quantify CRC serum biomarkers by combining a robust label-free quantification procedure followed of two consecutive steps of targeted parallel reaction monitoring (PRM) for bioma...
ORGANISM(S): Homo sapiens (Human) 
2022-02-28 | PXD010351 | Pride
Disease biomarkers Colorectal cancer Parallel reaction monitoring Diagnosis. 
ProteomicsIdentification and validation of stage-associated serum biomarkers in colorectal cancer_discovery phase C
Colorectal cancer (CRC) is one of the most prevalent and lethal cancer diseases worldwide. Here, we aimed to identify and quantify CRC serum biomarkers by combining a robust label-free quantification procedure followed of two consecutive steps of targeted parallel reaction monitoring (PRM) for bioma...
ORGANISM(S): Homo sapiens (Human) 
2022-03-01 | PXD010328 | Pride
Disease biomarkers Colorectal cancer Diagnosis Parallel reaction monitoring 
ProteomicsIdentification and validation of stage-associated serum biomarkers in colorectal cancer_discovery phase A2_bis
Colorectal cancer (CRC) is one of the most prevalent and lethal cancer diseases worldwide. Here, we aimed to identify and quantify CRC serum biomarkers by combining a robust label-free quantification procedure followed of two consecutive steps of targeted parallel reaction monitoring (PRM) for bioma...
ORGANISM(S): Homo sapiens (Human) 
2022-03-01 | PXD010458 | Pride
Disease biomarkers Colorectal cancer Diagnosis Parallel reaction monitoring 
ProteomicsIdentification and validation of stage-associated serum biomarkers in colorectal cancer_discovery phase D rep
Colorectal cancer (CRC) is one of the most prevalent and lethal cancer diseases worldwide. Here, we aimed to identify and quantify CRC serum biomarkers by combining a robust label-free quantification procedure followed of two consecutive steps of targeted parallel reaction monitoring (PRM) for bioma...
ORGANISM(S): Homo sapiens (Human) 
2022-03-01 | PXD010343 | Pride
Disease biomarkers Colorectal cancer Parallel reaction monitoring Diagnosis. 
ProteomicsPRM for JEV infected BV2 cells proteomics
Quantification of Differentially Expressed Proteins (DEPs) by PRM For the JEV-infected group, 15 upregulated DEPs were selected for validation by PRM. Protein extraction and tryptic digestion were performed following the same protocol used for the label-free quantitative proteomics experiment.
ORGANISM(S): Mus musculus (Mouse) 
2022-09-09 | PXD035938 | Pride
Prm Jev Bv2 
ProteomicsAn Integrated Quantitative Proteomics Workflow for Biomarker Discovery and Validation in Plasma
Blood plasma is one of the most widely used samples for biomarker discovery research as well as clinical investigations for diagnostic and therapeutic purposes. However, the plasma proteome is extremely complex due to its wide dynamic range of protein concentrations and the presence of high-abundanc...
ORGANISM(S): Homo sapiens (Human) 
2020-09-07 | PXD017834 | Pride
Targeted proteomics Label-based quantitation Label-free quantitation 
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