Number of found documents: 55
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ANALYSIS OF NON-ENZYMATIC POSTTRANSLATIONAL MODIFICATED (GLYCATED) ALBUMIN BY NANO-LC/MS/MS
Šťastná, Zdeňka; Pataridis, Statis; Sedláková, Pavla; Mikšík, Ivan
2012 - English
Posttranslational modifications of proteins are important reactions, which significantly affect the function of proteins in the organism. In principle, they can be divided into enzymatic and non-enzymatic modifications. Non-enzymatic reactions include glycation (earlier called nonezymatic glycosylation), which plays an important role in the development of chronic complications of diabetes mellitus, uremia, in the process of aging and degeneration of the brain.This work deals with the study of glycated albumins (human serum albumin and bovine serum albumin). Methodologically we used nano-liquid chromatography coupled to Q-TOF mass spectrometer. In vitro modified proteins were cleavaged by trypsin and arising peptides were separated on C18 nano column with trap-column. Peptides and their modifications were analysed by high-resolution Q-TOF mass spectrometer MaXis with precision determination of mass below 2 ppm. We found some modifications of proteins. Besides well known carboxymethyllysine new ones were determined - create mass shift 78, 132 and 218. Origin of these modifications is discussed and possible structure is presented. All found modifications were allocated to the structure of proteins and reactivity to various oxo-compounds was also examined Keywords: non-enzymatic glycation; serum albumin Available at various institutes of the ASCR
ANALYSIS OF NON-ENZYMATIC POSTTRANSLATIONAL MODIFICATED (GLYCATED) ALBUMIN BY NANO-LC/MS/MS

Posttranslational modifications of proteins are important reactions, which significantly affect the function of proteins in the organism. In principle, they can be divided into enzymatic and ...

Šťastná, Zdeňka; Pataridis, Statis; Sedláková, Pavla; Mikšík, Ivan
Fyziologický ústav, 2012

Application of morphology filters to compensation of lateral illumination inhomogeneities in confocal microscopy images
Michálek, Jan; Čapek, Martin; Mao, X. W.; Kubínová, Lucie
2010 - English
Due to multiple distortion effects, confocal laser scanning microscopy (CLSM) images of even homogeneous specimen regions suffer from irregular brightness variations. In this paper, a fast correction method based on estimating a spatially variable illumination gain, and multiplying acquired CLSM images by the inverse of the estimated gain, is presented. The method does not require any special calibration (reference) images since the gain estimate is extracted from the CLSM image being corrected itself. The proposed approach exploits two types of morphological filters: the median filter and a morphological operator called the upper Lipschitz cover Keywords: CLSM; illumination inhomogeneities Available at various institutes of the ASCR
Application of morphology filters to compensation of lateral illumination inhomogeneities in confocal microscopy images

Due to multiple distortion effects, confocal laser scanning microscopy (CLSM) images of even homogeneous specimen regions suffer from irregular brightness variations. In this paper, a fast correction ...

Michálek, Jan; Čapek, Martin; Mao, X. W.; Kubínová, Lucie
Fyziologický ústav, 2010

Fitting geometrical models to 3D confocal microscopy images using graph cuts iteratively
Janáček, Jiří
2010 - English
A new iterative method for fitting triangulated surfaces and geometric graphs to surfaces and fibre-like structures is based on the calculation of the minimal graph cut in every iteration. The method was used for improvement of the geometric model of muscle fibres surfaces and capillaries in skeletal muscle from 3D confocal image Keywords: graph cut; skeletal muscle; confocal microscopy Available at various institutes of the ASCR
Fitting geometrical models to 3D confocal microscopy images using graph cuts iteratively

A new iterative method for fitting triangulated surfaces and geometric graphs to surfaces and fibre-like structures is based on the calculation of the minimal graph cut in every iteration. The method ...

Janáček, Jiří
Fyziologický ústav, 2010

Elastic registration of biomedical images on CUDA-Supported graphics procesor units
Michálek, Jan; Čapek, Martin; Janáček, Jiří; Kubínová, Lucie
2010 - English
Elastic registration is a task of finding the matching of two images, using geometric and elastic transformations, so that objects in images have the same size, position and orientation. We apply elastic registration in the framework of volume reconstruction, where an object acquired from parallel physical sections is composed and mutual positions of the sections including deformations caused by their cutting have to be found. The method lies in optimizing a functional consisting of two parts: first, discrete total variation as a measure of roughness and, second, L1 norm as a measure of dissimilarity of images. As a parallelizable optimization strategy we apply a potential-based equivalent transformation of a (max,+)-labelling problem. CUDA-based implementation of the described elastic registration algorithm is reasonably fast, requires seconds to minutes of calculations, provides good results and, thus, can be used for practical tasks dealing with alignment of biomedical images Keywords: volume reconstruction; elastic alignment; CUDA Available at various institutes of the ASCR
Elastic registration of biomedical images on CUDA-Supported graphics procesor units

Elastic registration is a task of finding the matching of two images, using geometric and elastic transformations, so that objects in images have the same size, position and orientation. We apply ...

Michálek, Jan; Čapek, Martin; Janáček, Jiří; Kubínová, Lucie
Fyziologický ústav, 2010

Multi-photon excitation microscopy
Chernyavskiy, Oleksandr; Kubínová, Lucie
2008 - English
Multiphoton excitation microscopy (MPM), being some time ago rather exotic than an easy-to-handle tool, becomes now more widely used due to advances in laser technique. This promising, yet expensive technique provides such advantages, as deeper penetration depth, lower photodamage, especially important in live cells imaging for extended periods of time Multifotonová excitační mikroskopie se z exotické techniky postupně stává stále více používaným nástrojem díky pokroku v laserové technice. Tato slibná i když náročná technika poskytuje výhody, jako je průnik do větší hloubky, nižší fotopoškození, jež jsou zvláště užitečné při dlouhodobém zobrazování buněk Keywords: two-photon excitation; multiphoton excitation; second-harmonic generation Available at various institutes of the ASCR
Multi-photon excitation microscopy

Multiphoton excitation microscopy (MPM), being some time ago rather exotic than an easy-to-handle tool, becomes now more widely used due to advances in laser technique. This promising, yet expensive ...

Chernyavskiy, Oleksandr; Kubínová, Lucie
Fyziologický ústav, 2008

Effects of dietary polyunsaturated fatty acids on myocardial and serum lipids in normoxic and chronically hypoxic rat heart
Balková, P.; Ježková, J.; Hlaváčková, M.; Neckář, Jan; Staňková, B.; Kolář, František; Novák, F.; Nováková, O.
2008 - English
The goal of this study was to fellow up the effect of n-3 and n-6 polyunsaturated fatty acids (PUFA) and the adaptation to chronic intermittent hypoxic (CIH) on fatty acid (FA) composition of serum and heart lipids in rats. The results of this study showed that PUFA diets and CIH distinctly modified FA profile in serum and heart lipids; both interventions considered to be cardioprotective Cílem práce bylo sledovat změny srdečních a sérových lipidů potkana po dlouhodobé dietě obohacené o n-3 a n-6 polynenasycené mastné kyseliny (PUFA) a adaptaci na chronickou intermitentní hypoxii (CIH). Studie ukázala, že jak dieta obohacená o PUFA tak CIH zásadně modifikují složení mastných kyselin v sledovaných lipidech a mohou souviset s potenciálními kardioprotektivními účinky obou intervencí Keywords: heart; chronic hypoxia; lipid diet Available at various institutes of the ASCR
Effects of dietary polyunsaturated fatty acids on myocardial and serum lipids in normoxic and chronically hypoxic rat heart

The goal of this study was to fellow up the effect of n-3 and n-6 polyunsaturated fatty acids (PUFA) and the adaptation to chronic intermittent hypoxic (CIH) on fatty acid (FA) composition of serum ...

Balková, P.; Ježková, J.; Hlaváčková, M.; Neckář, Jan; Staňková, B.; Kolář, František; Novák, F.; Nováková, O.
Fyziologický ústav, 2008

Quantification of Osteocyte Lacunar Density and Anisotropy of Vascular Canals in Compact Bone
Maštálková, K.; Tonar, Z.; Fiala, P.; Janáček, Jiří
2008 - English
Numerical density of osteocyte lacunes in cortex and medula of diaphysis of tibia was estimated using thick sections and disector method. Anisotropy in lacunes localization was proved by a method based on Delaunay triangulation Numerická hustota osteocytů v dřeni a kůře střední části lidské holenní kosti byla odhadnuta z tlustých řezů metodou disektoru. Anizotropie v rozmístění osteocytů byla prokázána metodou založenou na Deloneho triangulaci Keywords: osteocyte; disector Available at various institutes of the ASCR
Quantification of Osteocyte Lacunar Density and Anisotropy of Vascular Canals in Compact Bone

Numerical density of osteocyte lacunes in cortex and medula of diaphysis of tibia was estimated using thick sections and disector method. Anisotropy in lacunes localization was proved by a method ...

Maštálková, K.; Tonar, Z.; Fiala, P.; Janáček, Jiří
Fyziologický ústav, 2008

Error Assesment of Volume Reconstruction of Biological Specimen from Confocal Microscopy Images
Čapek, Martin; Janáček, Jiří; Kubínová, Lucie; Smrčka, P.; Hána, K.
2008 - English
We performed both volume reconstructions using images captured by the USB microscope and images captured by the confocal microscope. We manually marked important corresponding structures in both reconstructed data sets, and computed distances between corresponding structures, assuming that structures in the reconstruction from USB microscope data are without deformations. According to our expectations, the main errors of high-resolution volume reconstruction (from confocal data) are in the direction of physical cutting (vary in units of millimeters) and in the direction perpendicular to cutting due to off-cut (vary in tenths of millimeters) Objemovou rekonstrukci využíváme pro vizualizaci biologických preparátů, které jsou větší, než je velikost zorného pole a/nebo silnější v tloušťce než je hloubka průniku laserového paprsku konfokálního mikroskopu. Tlusté preparáty je nutno nakrájet na fyzické řezy mikrotomem, avšak krájení způsobuje deformaci a ztrátu části informace prořezem, které vedou k chybám následné objemové rekonstrukce. Pro získání informace o deformaci jsme USB mikroskopem Dino-Lite zaznamenali řezné plochy preparátu zalitého v parafinu před jeho nakrájením, tj. bez deformací. Po nasnímání fyzických řezů vyhodnocujeme chybu deformace pomocí Prokrustovy vzdálenosti, která kvantifikuje střední kvadratickou vzdálenost tvarů vyjádřených pomocí bodů Keywords: error assessment; volume reconstruction Available at various institutes of the ASCR
Error Assesment of Volume Reconstruction of Biological Specimen from Confocal Microscopy Images

We performed both volume reconstructions using images captured by the USB microscope and images captured by the confocal microscope. We manually marked important corresponding structures in both ...

Čapek, Martin; Janáček, Jiří; Kubínová, Lucie; Smrčka, P.; Hána, K.
Fyziologický ústav, 2008

Tools for visualization of large three-dimensional objects in biology
Čapek, Martin; Janáček, Jiří; Kubínová, Lucie; Smrčka, P.; Hána, K.
2007 - English
Three-dimensional images of biological objects or structures recorded by modern acquisition tools like a confocal laser scanning microscope are visualized for their evaluation, analysis and measurement. We report about possibilities for three-dimensional visualization which are offered by either our Rapid3D software package suited for three-dimensional reconstruction and visualization of bio-medical images or Ellipse modular software package devoted to biological image processing (ViDiTo company, Slovakia) 3D obrazy biologických objektů nebo struktur jsou získávány pomocí moderních zobrazovacích zařízení jako je například konfokální laserový rastrovací mikroskop pro jejich ohodnocení, analýzu nebo měření. Reportujeme o možnostech vizualizace 3D skalárních obrazů pomocí našeho programového prostředí Rapid3D určeného pro objemovou rekonstrukci a vizualizaci biomedicínských obrazů nebo pomocí modulárního softwaru Ellipse určeného pro zpracování biologických obrazů Keywords: 3D visualization; confocal microscopy Available at various institutes of the ASCR
Tools for visualization of large three-dimensional objects in biology

Three-dimensional images of biological objects or structures recorded by modern acquisition tools like a confocal laser scanning microscope are visualized for their evaluation, analysis and ...

Čapek, Martin; Janáček, Jiří; Kubínová, Lucie; Smrčka, P.; Hána, K.
Fyziologický ústav, 2007

LP-12 Approaches to visualization of 3D structures captured by a confocal microscope
Čapek, Martin; Janáček, Jiří; Kubínová, Lucie; Hána, K.; Smrčka, P.
2007 - English
Laser scanning confocal microscopes are capable to focus a laser beam into a layer of an investigated biological specimen, and by the gradual scanning of this layer they acquire an optical section. By consecutive scanning of all preset layers of the specimen we obtain a stack of optical sections, i.e. a 3D digital representation of the specimen. In the presented study we focus on volume reconstruction of large biological tissues, i.e. tissues greater than field of view and/or thicker than maximal depth of scanning of a confocal microscope. As a result of volume reconstruction we obtain a high resolution 3D image of the biological specimen. 3D visualization is offered either by our Rapid3D software package suited for three-dimensional reconstruction and visualization of biomedical images, or Ellipse modular software package devoted to biological image processing (created by ViDiTo company, Slovakia) Článek popisuje přístupy k objemové rekonstrukci a vizualizaci 3D biologických struktur nasnímaných konfokálním mikroskopem Keywords: confocal microscopy; volume visualization Available at various institutes of the ASCR
LP-12 Approaches to visualization of 3D structures captured by a confocal microscope

Laser scanning confocal microscopes are capable to focus a laser beam into a layer of an investigated biological specimen, and by the gradual scanning of this layer they acquire an optical section. By ...

Čapek, Martin; Janáček, Jiří; Kubínová, Lucie; Hána, K.; Smrčka, P.
Fyziologický ústav, 2007

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