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MetabolomicsLiquid Chromatography-Mass Spectrometry Quantification of Phytochemicals in Withania somnifera Using Data-Dependent Acquisition, Multiple-Reaction-Monitoring, and Parallel-Reaction-Monitoring with an Inclusion List

Characterization of botanical extracts by mass spectrometry-based metabolomics analysis helps in determining the phytochemical composition that underlies their bioactivity and potential health benefits, while also supporting reproducibility of effects in clinical trials. The quantification of sev...

2024-07-10 | MTBLS10418 | MetaboLights
ProteomicsPicky - a simple online method designer for targeted proteomics
Picky is an online method designer for targeted proteomics. To assess the performance of PRM methods designed by Picky we carried out a benchmark experiment. As reference samples we used different amounts of human proteins spiked into 1.4 µg yeast lysate. These sample where analyzed in PRM and DDA m...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast) 
2017-08-04 | PXD007039 | Pride
Prm Benchmark Dda 
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 
ProteomicsA Novel Strategy to Rapidly Profile and Quantify High-Risk Host Cell Proteins using Integrated DDA-PRM-dMRM Mode
We developed a novel strategy using integrated DDA-PRM-dMRM to comprehensively profile and quantify high-risk HCPs in CHO cell-derived biotherapeutics. Firstly, we performed deep proteomic analysis of CHO cells using DDA-PASEF mode, constructing a high-quality spectral library covering all potential...
ORGANISM(S): Cricetulus Griseus 
2025-05-03 | PXD063690 |
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 
ProteomicsA quick guideline for PRM method development applied to target proteomics in biological fluids
Combining in-silico analysis, serum high abundant protein depletion, and DDA and PRM acquisitions, we established a simple workflow to select PRM high response peptides for protein quantification in serum. The workflow enables evaluating peptide intensity, MS2 match with the spectral library, peptid...
ORGANISM(S): Homo sapiens (Human) 
2024-02-05 | PXD045089 | Pride
Complement system Prm Human serum Quantitative proteomics Lc-ms/ms 
ProteomicsFour-dimensional proteomics analysis of human cerebrospinal fluid on a trapped ion mobility mass spectrometer using PASEF
A quadrupole time-of-flight mass spectrometry coupled with a trapped ion mobility mass spectrometer operated in parallel accumulation-serial fragmentation mode has recently emerged as proteome profiling platform capable of providing four dimensional features of elution time, collision cross section...
ORGANISM(S): Homo sapiens (Human) 
2023-02-28 | PXD035249 | Pride
4d proteomics And alzheimer’s disease Dda-pasef Csf Diapasef Prm-pasef 
ProteomicsPRM of Nt-arginylation under UPR stress
Targeted proteomics of Nt-arginylation on HeLa proteome under the stress of unfolded protein response. UPR was derived by combinational treatment of MG132 and thapsigargin. PRM method was selected to undertake targeted MS2 analysis. Data was prepared to have duplicates.
ORGANISM(S): Homo sapiens (Human) 
2025-11-10 | PXD058872 | Pride
Human Nt-arginylation Hela Upr 
ProteomicsUsing FAIMS to improve tumor neoantigen detection
DDA and PRM analysis, with and without FAIMS, for the T3, F244, and 1956 MCA sarcoma cell lines. PRM analysis of MHC-I neoantigens in ex vivo mouse tumors.
ORGANISM(S): Mus Musculus (ncbitaxon:10090) 
2023-08-08 | MSV000092617 | MassIVE
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