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Biomedical subjects

I Holländer

Publications and source records attributed to I Holländer.

8 recordsLinked to original sources

GASepo-a software solution for quantitative analysis of digital images in Epo doping control.

A software has been developed that is aimed at quantitative analysis of images acquired by isoelectric focusing and double blotting procedures used for recombinant erythropoietin doping control. It represents a unified and easy-to-use tool for Epo doping experts in WADA accredited laboratories. It is based on image segmentation philosophy that enables identification of individual bands whose characteristics are needed for evaluation of the Epo doping positivity criteria. Several modules implemented in the GASepo software include an original know how, in particular, the method of robust calculation of the cut-off line, band segmentation and classification algorithms. GASepo is being used in several doping control laboratories worldwide.

Algorithms↗

Quantitative analysis of images in erythropoietin doping control.

The software system GASepo has been developed as a tool to visualise and analyse doping (searching for performance-enhancing drugs in sports) with recombinant erythropoietin (rEpo). Digital images derived from the separation of Epo isoforms in gels by iso-electric focusing followed by double blotting and chemiluminescence detection contain spots (bands) of characteristic shape and positions. For Epo doping control, these have to be analysed and evaluated. A relevant element of the analysis is calculation of the reference cutoff-line (COL) to which the doping positivity criterion is related. Based on analysis of the previous method used, a novel method for the COL calculation was developed and validated. The methodology was based on generation of a partition of the image (lane) being processed into a system of adjacent subimages (blocks) and quantitative characterisation of intensity variability within these blocks by a suitably defined measure. The coordinate of the proper COL position, separating the image part with recombinant Epo bands from the homogeneous background, was calculated by minimisation of the difference function of the measures for two adjacent image blocks. The proposed method was tested on real Epo images and validated on a synthetic phantom of the Epo image. The deviations of the COL position are limited by a 7 pixel-wide corridor. For the cases of noise with standard deviations 2300 and 2600, the deviations did not exceed 2 pixels over the whole range of the lane width values. Testing the method on 50 real Epo images originating from different doping-control laboratories worldwide showed its robust behaviour in Epo images.

Computational Biology↗

An alternative method for electrophoretic gel image analysis in the GelMaster software.

A novel methodology of electrophoretic gel image analysis has been proposed that is based on two-dimensional image processing methods instead of previously used one-dimensional Gaussian deconvolution. The crucial problem of the analysis of imperfect gels, that consists in band detection, is solved using the algorithms of band boundary detection and intensity homogeneity indication. The template approach represents the core element of the developed algorithms. The GelMaster software system has been developed in which the novel algorithms are implemented. It involves two-stage interaction with the user: detection of the true bands and deleting the false band detections. The main features of the GelMaster system and the most important algorithms are described.

Algorithms↗

Adaptive smoothing of MR brain images by 3D geometry-driven diffusion.

The paper deals with the iterative three-dimensional (3D) smoothing of tomograms acquired by fast Magnetic Resonance (MR) imaging methods. The smoothing method explored, which is aimed basically at the improvement of 3D visualization quality, uses the physical concept of geometry-driven diffusion with a variable conductance function, based on a specific measure of the 3D neighborhood homogeneity. A novel stopping criterion is proposed for iterative 3D diffusion processing. A study of the transition from 2D to 3D algorithms is carried out. The main structure of the program implementation of the smoothing algorithms developed is described. Three smoothing/filtering methods, aimed at the improvement of 3D visualization of MR tomograms of the brain, are quantitatively and visually compared using real 3D MR images. The results of computer simulations with 3D smoothing, segmentation and visualization are presented and discussed.

Algorithms↗

The reflection of cognitive tasks in EEG and MRI and a method of its visualization.

Up until recently, neurology was dominated by localisatory thinking. Language and other so-called "centers" were considered to be centers of command controlling the respective functions. Today, there is general agreement that, instead, for every brain function numerous brain regions must act together. For the exploration of these manifold topographic cooperations produced by cognitive tasks, coherence of long-term EEG periods proved to be a proficient parameter for the representation of functionally essential connections. Because of the unequivocal meaningfulness of absolute coherence values, instead, only the signs of significant differences between coherence values during cognitive tasks and periods of EEG at rest before and after the task were considered for all possible electrode pairings and charted on schematic maps of the brain. In addition, the signs of significant changes of amplitude were entered. This procedure was performed for each of 6 frequency bands and for the 19 electrodes of the 10/20 system, thus yielding 171 possible plus or minus values for coherence and 19 for amplitude, respectively. The positions of the electrodes were marked by an MRI contrast medium. After the EEG, MRI examination was performed. The MRI data were segmented and the cortex was mapped onto a plane using a method similar to cartography. The exact electrode positions are registered from a similarly obtained map of the scalp and the electrode position pattern is used as basis for the coherence graphs. A detailed map of the cortex based on the segmented MRI data with the electrode positions marked is provided as a reference enabling allocation of the electrodes to the cortical structures. The usefulness of this procedure is demonstrated with a single subject by means of different cognitive tasks including musical thinking.

Aged↗

Influence of measurement inaccuracies on determination of left ventricular mass by M mode echocardiography.

OBJECTIVE: To determine to what extent inaccuracies in measuring the end diastolic diameter of the left ventricle, the interventricular septum, and the posterior wall, by M mode echocardiography influence the left ventricular mass calculated by the Devereux's formula. DESIGN: Mathematical model. RESULTS: Relatively small measurement inaccuracies such as 5%, which are known to be inherent in the echocardiographic method, will result in "changes" of left ventricular mass in the range of 8% to 15%. This is equivalent to expected changes in left ventricular mass seen during treatment. CONCLUSIONS: The use of Devereux's formula to calculate left ventricular mass is limited by measurement inaccuracies in individual patients.

Diastole↗

Cerebral cartography--a method for visualizing cortical structures.

We present a method for visualizing the human cortex on one planar map. The data are taken from a 3D MRI study. Ray tracing with non-parallel rays is used to project the cortical relief onto a non-planar projection surface, which is in turn mapped onto the plane by cartographical projection. Two modifications of the method are proposed: the spherical mapping uses a sphere as the projection surface; the model-based mapping uses an analytically defined model of the scalp to generate the normal vectors. The cerebral cartography can be used for example for producing anatomical reference maps on which EEG measurement data can be superimposed.

Algorithms↗