Biomedical subjects

Karin E Markides

Publications and source records attributed to Karin E Markides.

44 records · Page 3Linked to original sources

PubMed2002

Chromatographic alignment by warping and dynamic programming as a pre-processing tool for PARAFAC modelling of liquid chromatography-mass spectrometry data.

Solutes analysed with LC-MS are characterised by their retention times and mass spectra, and quantified by the intensities measured. This highly selective information can be extracted by multiway modelling. However, for full use and interpretability it is necessary that the assumptions made for the model are valid. For PARAFAC modelling, the assumption is a trilinear data structure. With LC-MS, several factors, e.g. non-linear detector response and ionisation suppression may introduce deviations from trilinearity. The single largest problem, however, is the retention time shifts not related to the true sample variations. In this paper, a time warping algorithm for alignment of LC-MS data in the chromatographic direction has been examined. Several refinements have been implemented and the features are demonstrated for both simulated and real data. With moderate time shifts present in the data, pre-processing with this algorithm yields approximately trilinear data for which reasonable models can be made.

Chromatography, Liquid↗

PubMed2002

A conductive polymeric material used for nanospray needle and low-flow sheathless electrospray ionization applications.

A conductive polypropylene/graphite mixture is used for the production of polymeric nanospray needle emitters and as a coating on fused-silica capillaries that are used for sheathless electrospray ionization (ESI). The described production of these polymeric nanospray needle emitters and sheathless ESI contacts is exceptionally easy and at a very low cost. The described polymeric nanospray emitters have shown excellent features regarding their chemical inertness and spray performance. The long-term stability of the nanospray needles exceeds 24 h of continuous use. Furthermore, the resistance to electrical discharges, which is one of the factors that often limits the lifetime of metal coated tips, has proven to be outstanding. A voltage of up to 5 kV could be applied without loss of spray performance. The use of polypropylene emitters offers a number of desirable features, as compared to silica based emitters. Among these features are mechanical flexibility and simplified regeneration of the nanospray needle. Continuous nanospray of peptides and proteins in conjunction with orthogonal time-of-flight mass spectrometry are shown with signal relative standard deviations of 5%. In addition, the polypropylene/graphite mixture has also been applied as the conductive contact for sheathless ESI in fast capillary electrophoresis separations.

Equipment Design↗

PubMed2002

Method for immobilization of liposomes in capillary electrophoresis by electrostatic interaction with derivatized agarose.

A novel procedure for immobilization of liposomes inside fused-silica capillaries is demonstrated. First, the inner wall of the capillaries was coated with a positively charged polymer, composed of derivatized agarose. Subsequently, negatively charged liposomes were immobilized by electrostatic interaction on the polymer coating. The developed liposome coated capillaries were used as a nanoseparation tool for studying interactions between small drug compounds and liposomes. Part of this work was presented at the 15th International Symposium on Microscale Separations and Analysis, HPCE 2002, Stockholm, Sweden, April 2002.

Electrophoresis, Agar Gel↗

PubMed2002

Use of an adsorbed chiral selector in capillary LC-MS.

Lasalocid was utilized as a chiral selector adsorbed on porous graphitic carbon. Important parameters were identified for the use of the chiral selector in capillary liquid chromatography combined with MS detection. The influence on both retention and enantioselectivity as well as mass spectrometric performance was studied at lasalocid concentrations of up to 12 mg/l (20 microM). Moreover, the stability of retention factors and enantioselectivities was also evaluated at low selector concentration of 1 mg/l (2 microM). The results show that in order to optimize the MS performance the selector concentration should be kept at low microM. The chromatographic performance at reduced selector concentration (1 mg/l = 2 microM) was studied over a 10-day period, showing satisfactory enantioselectivity and stable performance concerning enantioselectivity and retention.

Adsorption↗

PubMed2002

Pressurised fluid extraction (PFE) as an alternative general method for the determination of pesticide residues in rape seed.

A pressurised fluid extraction (PFE) multi-method has been developed for the determination of pesticide residues in rape seed. The method was validated for 25 different pesticides and metabolites. The reliability and efficiency of PFE for extracting pesticide residues from rape seed was investigated. The traditional extraction solvent, hexane saturated with acetonitrile, was used at elevated temperature and pressure. With increased temperature, the extraction kinetics were improved but at the same time more co-extractives were obtained in the form of lipids. When 1 g of rape seed was extracted at temperatures from 60 degrees C to 150 degrees C, the lipid content extracted was found to be as high as 17-26%. An additional clean-up step was therefore required and lipid co-extractives were effectively removed by gel permeation chromatography. The interpretation of the chromatograms and the quantification of the results were satisfactorily improved by the removal of interfering lipids. The developed method was used to extract vinclozolin and iprodione from incurred samples, resulting in a concentration in accordance with the results using conventional liquid-liquid extraction (LLE) between hexane and acetonitrile and also supercritical fluid extraction (SFE) using carbon dioxide. The results of the present study suggest that PEE is a good alternative extraction technique for the determination of pesticide residues in oil seed. Despite the necessity for a lipid-removal clean-up step, the PFE technique facilitated the extraction process by faster extractions and the possibility of automated analysis.

Brassica rapa↗

PubMed2002

Electrochemical solid-phase microextraction of anions and cations using polypyrrole coatings and an integrated three-electrode device.

A method for the extraction, transfer and desorption of anions and cations under controlled potential conditions employing a new integrated three-electrode device is described. The device, containing working, reference and counter electrodes, was prepared from tubes that could be moved vertically with respect to each other. In this way, a small amount of solvent, held by capillary force, remained between the electrodes when the device was lifted out of a solution after an extraction. This design allowed the potential control to be maintained at all times. With the new integrated device, it was possible to perform potential controlled desorption into vials containing as little as 200 microl of solution. The required ion exchange capacity was obtained by electrodeposition of a polypyrrole coating on the surface of the glassy carbon working electrode. Solid-phase microextractions of several cations or anions were performed simultaneously under potentiostatic control by doping the polypyrrole coating with different anions such as perchlorate and p-toluenesulfonate. The efficiency of the extractions, which could be altered by varying the potential of the working electrode, could be increased by 150 to 200% compared to extractions using normal solid-phase microextraction conditions under open circuit conditions. A constant potential of +1.0 V and -0.5 V with respect to the silver pseudo reference electrode, was found to be well-suited for the extraction of samples containing ppm concentrations of anions (chloride, nitrite, bromide, nitrate, sulfate and phosphate) and cations (cadmium, cobalt and zinc), respectively.

Journal Article↗

PubMedDate not supplied

Peptide mapping of proteins in human body fluids using electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry.

Human body fluids have been rediscovered in the post-genomic era as great sources of biological markers and perhaps particularly as sources of potential protein biomarkers of disease. Analytical tools that allow rapid screening, low sample consumption, and accurate protein identification are of great importance in studies of complex biological samples and clinical diagnosis. Mass spectrometry is today one of the most important analytical tools with applications in a wide variety of fields. One of the fastest growing applications is in proteomics, or the study of protein expression in an organism. Mass spectrometry has been used to find post-translational modifications and to identify key functions of proteins in the human body. In this study, we review the use of human body fluids as sources for clinical markers and present new data that show the ability of Fourier transform ion cyclotron resonance (FTICR) mass spectrometry (MS) to identify and characterize proteins in four human body fluids: plasma, cerebrospinal fluid (CSF), saliva, and urine. The body fluids were tryptically digested without any prior separation, purification, or selection, and the digest was introduced into a 9.4 T FTICR mass spectrometer by direct-infusion electrospray ionization (ESI). Even though these samples represent complex biological mixtures, the described method provides information that is comparable with traditional 2D-PAGE data. The sample consumption is extremely low, a few microliters, and the analysis time is only a few minutes. It is, however, evident that the separation of proteins and/or peptides must be included in the methodology, in order to detect low-abundance proteins and other proteins of biological relevance.

Biomarkers↗

PubMedDate not supplied

Rapid analysis of tryptically digested cerebrospinal fluid using capillary electrophoresis-electrospray ionization-Fourier transform ion cyclotron resonance-mass spectrometry.

Mass spectrometry has in recent years been established as the method of choice for protein identification and characterization in proteomics. Capillary electrophoresis (CE) is a fast and efficient method for the separation of peptides and proteins. The on-line combination of CE with Fourier transform ion cyclotron resonance (FTICR) mass spectrometry (MS) has been shown to be a powerful tool in the analysis of complex mixtures of proteins. This paper presents the first results from a proteomic analysis of human cerebrospinal fluid proteins by tryptic digestion and CE-FTICR-MS, where 30 proteins could be identified on a 95% confidence level with mass measurement errors less than 5 ppm.

Cerebrospinal Fluid↗