0000000000007564
AUTHOR
Isabel Lliso
Detection of batch effects in liquid chromatography-mass spectrometry metabolomic data using guided principal component analysis.
Metabolomics based on liquid chromatography-mass spectrometry (LC-MS) is a powerful tool for studying dynamic responses of biological systems to different physiological or pathological conditions. Differences in the instrumental response within and between batches introduce unwanted and uncontrolled data variation that should be removed to extract useful information. This work exploits a recently developed method for the identification of batch effects in high throughput genomic data based on the calculation of a delta statistic through principal component analysis (PCA) and guided PCA. Its applicability to LC-MS metabolomic data was tested on two real examples. The first example involved t…
Infrared biospectroscopy for a fast qualitative evaluation of sample preparation in metabolomics.
Liquid chromatography-mass spectrometry (LC-MS) has been increasingly used in biomedicine to study the dynamic metabolomic responses of biological systems under different physiological or pathological conditions. To obtain an integrated snapshot of the system, metabolomic methods in biomedicine typically analyze biofluids (e.g. plasma) that require clean-up before being injected into LC-MS systems. However, high resolution LC-MS is costly in terms of resources required for sample and data analysis and care must be taken to prevent chemical (e.g. ion suppression) or statistical artifacts. Because of that, the effect of sample preparation on the metabolomic profile during metabolomic method d…
Assessment of oxidative damage to proteins and DNA in urine of newborn infants by a validated UPLC-MS/MS approach
The assessment of oxidative stress is highly relevant in clinical Perinatology as it is associated to adverse outcomes in newborn infants. This study summarizes results from the validation of an Ultra Performance Liquid Chromatography-tandem Mass Spectrometry (UPLC-MS/MS) method for the simultaneous quantification of the urinary concentrations of a set of endogenous biomarkers, capable to provide a valid snapshot of the oxidative stress status applicable in human clinical trials, especially in the field of Perinatology. The set of analytes included are phenylalanine (Phe), para-tyrosine (p-Tyr), ortho-tyrosine (o-Tyr), meta-tyrosine (m-Tyr), 3-NO2-tyrosine (3NO(2)-Tyr), 3-Cl-tyrosine (3Cl-T…
Green determination of the presence of volatile organic compounds in vehicle repair shops through passive sampling.
A simple, fast and green direct analytical methodology has been developed to evaluate the concentration level of volatile organic compounds (VOCs) in indoor areas of vehicle repair shops using membrane devices as passive samplers. VOCs retained in the samplers were directly determined without any sample pre-treatment and avoiding the use of solvents by head space (HS) coupled to gas chromatography-mass spectrometry (GC-MS) in only 20 min. Benzene, toluene, tetrachloroethene, m,p-xylene and o-xylene were found at concentration levels from 0.1 to 11.2 mg m(-3).