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MetabolomicsLipidCreator workbench to probe the lipidomic landscape - Platelet isolation and stimulation - DIA lipid mediator validation

Here we present LipidCreator, a software that fully supports targeted lipidomics assay development. LipidCreator offers a comprehensive framework to compute MS/MS fragment masses for over 60 lipid classes. LipidCreator provides all functionalities needed to define fragments, manage stable isotope...

2020-04-15 | MTBLS1382 | MetaboLights
MetabolomicsDIA-based LC-MS proteomic profiling of serum from asthma patients with different TCM syndromes
Serum samples were collected from healthy controls and asthma patients classified into lung qi deficiency and phlegm turbidity obstructing lung syndromes. DIA LC-MS was performed to acquire proteomic data, differential proteins and related molecular pathways were analyzed to explore serum molecular ...
2026-09-02 | MTBLS14938 | MetaboLights
MetabolomicsA novel strategy for mining and identification of acylcarnitines using data-independent-acquisition (DIA) based retention time prediction modeling and pseudo-characteristic fragmentation ions matching
It is a challenging work to screen, identify, and quantify acylcarnitines in complex biological samples. A method, based on the retention time (RT) prediction and data-independent acquisition strategies, was proposed for the large-scale identification of acylcarnitines using liquid chromatography co...
2021-10-06 | MTBLS1932 | MetaboLights
MetabolomicsDIAMetAlyzer allows automated false-discovery rate-controlled analysis for data-independent acquisition in metabolomics
The extraction of meaningful biological knowledge from high-throughput mass spectrometry data relies on limiting false discoveries to a manageable amount. For targeted approaches in metabolomics a main challenge is the detection of false positive metabolic features in the low signal-to-noise ranges ...
2022-09-05 | MTBLS1108 | MetaboLights
MetabolomicsCustomized Consensus Spectral Library Building for Untargeted Quantitative Metabolomics Analysis with Data Independent Acquisition Mass Spectrometry and MetaboDIA Workflow
Data independent acquisition-mass spectrometry (DIA-MS) coupled with liquid chromatography is a promising approach for rapid, automatic sampling of MS/MS data in untargeted metabolomics. However, wide isolation windows in DIA-MS generate MS/MS spectra containing a mixed population of fragment ions t...
2018-03-26 | MTBLS417 | MetaboLights
ProteomicsUntargeted data independent acquisition proteomics analysis using Orbitrap mass spectrometers and DIA-Umpire
Untargeted data independent acquisition proteomics analysis using Orbitrap mass spectrometers and DIA-Umpire
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-04-01 | MSV000080875 | MassIVE
ProteomicsE.coli - Whole organism, DIA, SWATHMS (Midhaetal,scidata2020)
abundance based on DIA, SWATHMS, Interaction consistency score: 8.2, Coverage: 49
ORGANISM(S): 511145 
2020-00-00 | 171934967 | PAXDB
ProteomicsExtensive and accurate benchmarking of DIA acquisition methods and softwares using a complex
In order to compare workflows for acquisition and treatment of proteomic data analyzed in Data Independent Acquisition (DIA) mode, a proteomic standard has been generated by spike-in the 48 human proteins of UPS1 (Sigma) in a whole cell extract of E.coli at 8 different concentrations ranging from 0....
ORGANISM(S): Escherichia Coli (ncbitaxon:562) Homo Sapiens (ncbitaxon:9606) 
2021-06-09 | MSV000087597 | MassIVE
ProteomicsImpact of the identification strategy on reproducibility of DDA and DIA results
Study of the impact of the identification strategy used for DDA and DIA results
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-11-17 | MSV000081719 | MassIVE
ProteomicsProtein Contaminants Matter: Building Universal Protein Contaminant Libraries for DDA and DIA Proteomics
Mass spectrometry-based proteomics is challenged by the presence of contaminant background signals. In particular, protein contaminants from reagents and sample handling are often abundant and almost impossible to avoid, reducing the sensitivity, specificity and reproducibility of protein identifica...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Mus Musculus (ncbitaxon:10090) 
2022-01-21 | MSV000088714 | MassIVE
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