Biomedical subjects

F Pernus

Publications and source records attributed to F Pernus.

At least 19 recordsLinked to original sources

PubMed2002

Comparative evaluation of JPEG and JPEG2000 compression in quantitative digital subtraction radiography.

OBJECTIVES: The aim of this in vitro study was to compare the impact of JPEG and the novel JPEG2000 compression standard on quantitative digital subtraction radiography (DSR) and to determine the acceptable JPEG2000 compression ratios for DSR. METHODS: Nine dry pig mandible sections were radiographed three times ('Baseline', 'No change', and 'Gain') with standardized projection geometry. Bone gain was simulated by adding artificial bone chips (1, 4 and 15 mg). Images were registered, compressed by JPEG and JPEG2000 using compression ratios (CR) of 1 : 7, 1 : 16, 1 : 22, and 1 : 31, and then subtracted. Image distortion was assessed objectively by calculating average pixel error and peak signal to noise ratio. No change areas in compressed and subtracted 'No change-Baseline' images and bone gain volumes in compressed and subtracted 'Gain-Baseline' images were calculated for both compression standards and compared. RESULTS: JPEG introduced less distortion at low CRs, while JPEG2000 was superior at higher CRs. At CR of 1 : 7, no significant difference between JPEG and JPEG2000 was found. JPEG2000 yielded better results for no change measurements at higher CRs. Volumes of simulated bone gain were overestimated when JPEG and underestimated when JPEG2000 compression was used. CONCLUSIONS: At CR of 1 : 7 JPEG and JPEG2000 performed similarly, which indicates that CR of 1:7 in JPEG2000 can be used for DSR if images are registered before compression. At higher CRs, JPEG2000 is superior to JPEG but image distortions are too high for reliable quantitative DSR.

Algorithms↗

PubMed2002

Impact of JPEG lossy image compression on quantitative digital subtraction radiography.

OBJECTIVES: The aim of the study was to evaluate the impact of JPEG lossy image compression on the estimation of alveolar bone gain by quantitative digital subtraction radiography (DSR). METHODS: Nine dry domestic pig mandible posterior segments were radiographed three times ('Baseline', 'No change', and 'Gain') with standardized projection geometry. Bone gain was simulated by adding artificial bone chips (1, 4, and 15 mg). Images were either compressed before or after registration. No change areas in compressed and subtracted 'No change-Baseline' images and bone gain volumes in compressed and subtracted 'Gain-Baseline' images were calculated and compared to the corresponding measurements performed on original subtracted images. RESULTS: Measurements of no change areas ('No change-Baseline') were only slightly affected by compressions down to JPEG 50 (J50) applied either before or after registration. Simulated gain of alveolar bone ('Gain-Baseline') was underestimated when compression before registration was performed. The underestimation was bigger when small bone chips of 1 mg were measured and when higher compression rates were used. Bone chips of 4 and 15 mg were only slightly underestimated when using J90, J70, and J50 compressions before registration. CONCLUSIONS: Lossy JPEG compression does not affect the measurements of no change areas by DSR. Images undergoing subtraction should be registered before compression and if so, J90 compression with a compression ratio of 1:7 can be used to detect and measure 4 mg and larger bone gain.

Alveolar Process↗

PubMed2002

Comparative evaluation of retrospective shading correction methods.

Because of the inherent imperfections of the image formation process, microscopical images are often corrupted by spurious intensity variations. This phenomenon, known as shading or intensity inhomogeneity, may have an adverse affect on automatic image processing, such as segmentation and registration. Shading correction methods may be prospective or retrospective. The former require an acquisition protocol tuned to shading correction, whereas the latter can be applied to any image, because they only use the information already present in an image. Nine retrospective shading correction methods were implemented, evaluated and compared on three sets of differently structured synthetic shaded and shading-free images and on three sets of real microscopical images acquired by different acquisition set-ups. The performance of a method was expressed quantitatively by the coefficient of joint variations between two different object classes. The results show that all methods, except the entropy minimization method, work well for certain images, but perform poorly for others. The entropy minimization method outperforms the other methods in terms of reduction of true intensity variations and preservation of intensity characteristics of shading-free images. The strength of the entropy minimization method is especially apparent when applied to images containing large-scale objects.

Algorithms↗

PubMed2001

Model-based automated detection of mammalian cell colonies.

Manually counting cell colonies, especially those that originate from fibroblast cell lines, is a time-consuming, eye-straining and tedious task in which consistency of counting is difficult to maintain. In this paper we present a novel model-based image segmentation method, which employs prior knowledge about the shape of a colony with the aim to automatically detect isolated, touching and overlapping cell colonies of various sizes and intensities. First, a set of hypothetical model instances is generated by using a robust statistical approach to estimate the model parameters and a novel confidence measure to quantify the difference between a model instance and the underlying image. Second, the model instances matching the individual colonies in the image are selected from the set by a minimum description length principle. The procedure was applied to images of Chinese hamster lung fibroblast cell line DC3F, which forms poorly defined or 'fuzzy' colonies. The correlation with manual counting was determined and the cell survival curves obtained by automated and manual counting were compared. The results obtained show that the proposed automatic procedure was capable to correctly identify 91% of cell colonies typical of mammalian cell lines.

Animals↗

PubMed2001

Retrospective correction of MR intensity inhomogeneity by information minimization.

In this paper, the problem of retrospective correction of intensity inhomogeneity in magnetic resonance (MR) images is addressed. A novel model-based correction method is proposed, based on the assumption that an image corrupted by intensity inhomogeneity contains more information than the corresponding uncorrupted image. The image degradation process is described by a linear model, consisting of a multiplicative and an additive component which are modeled by a combination of smoothly varying basis functions. The degraded image is corrected by the inverse of the image degradation model. The parameters of this model are optimized such that the information of the corrected image is minimized while the global intensity statistic is preserved. The method was quantitatively evaluated and compared to other methods on a number of simulated and real MR images and proved to be effective, reliable, and computationally attractive. The method can be widely applied to different types of MR images because it solely uses the information that is naturally present in an image, without making assumptions on its spatial and intensity distribution. Besides, the method requires no preprocessing, parameter setting, nor user interaction. Consequently, the proposed method may be a valuable tool in MR image analysis.

Brain Neoplasms↗

PubMed2000

Retrospective shading correction based on entropy minimization.

Shading is a prominent phenomenon in microscopy, manifesting itself via spurious intensity variations not present in the original scene. The elimination of shading effects is frequently necessary for subsequent image processing tasks, especially if quantitative analysis is the final goal. While most of the shading effects may be minimized by setting up the image acquisition conditions carefully and capturing additional calibration images, object-dependent shading calls for retrospective correction. In this paper a novel method for retrospective shading correction is proposed. Firstly, the image formation process and the corresponding shading effects are described by a linear image formation model, which consists of an additive and a multiplicative parametric component. Secondly, shading correction is performed by the inverse of the image formation model, whose shading components are estimated retrospectively by minimizing the entropy of the acquired images. A number of tests, performed on artificial and real microscopical images, show that this approach is efficient for a variety of differently structured images and as such may have applications in and beyond the field of microscopical imaging.

Alloys↗

PubMed2000

Influence of developer exhaustion on accuracy of quantitative digital subtraction radiography: an in vitro study.

OBJECTIVE: The aim of the study was to evaluate the influence of developer exhaustion on accuracy of quantitative digital subtraction radiography. STUDY DESIGN: Six objects, each incorporating a section of dry human mandible, were radiographed with 4 exposure times. Baseline films were processed in fresh solutions, whereas follow-up films were processed in fresh and in increasingly exhausted solutions (ie, 1, 2, and 3 weeks old). Bone loss and bone gain were computer simulated in 17 regions of interest on baseline radiographs. Area and volume of changes in mineralization were measured in subtracted images, obtained by subtraction of baseline from their corresponding follow-up radiographs. Friedman's 2-way analysis of variance by ranks and Wilcoxon signed-rank test were used for statistical analysis. RESULTS: Because of exhausted developer, bone loss was relatively underestimated from 6.6% to 16.5% (P <.05), whereas bone gain was relatively overestimated from 9.7% to 16.7% (P <.05). CONCLUSIONS: This in vitro study demonstrates that films for quantitative digital subtraction radiography should be processed in fresh developer or error might be introduced.

Alveolar Bone Loss↗

PubMed1999

Registration of serial transverse sections of muscle fibers.

BACKGROUND: Structural and functional characterization of skeletal muscles is often assessed by histochemical techniques, which enable the classification into different fiber types by combining the reactions in serial transverse muscle cross-sections. A drawback is that a knowledgeable operator is required to combine and evaluate the reactions, which is a time-consuming, tedious, and subjective task. To enhance the speed and reproducibility of muscle fiber typing, the registration of serial transverse sections of muscle fibers images has been proposed as a preprocessing step. METHODS: Three different registration methods were considered: first, a semi-automatic elastic point-based registration; second, an automatic (rigid, affine, and projective) whole image content-based registration; and, third, an automatic hierarchical elastic registration obtained by integration of the first two methods. The performances of the methods were tested on a database of 50 image stacks each containing three images of histochemically differently stained serial human muscle cross-sections. RESULTS: The amounts of successful globally and locally registered stacks were approximately 20% for automatic rigid registration, 60% for automatic affine and projective registrations, and 80% for semi-automatic and automatic elastic registration. CONCLUSIONS: By using robust elastic registration methods, the automatic registration of serial transverse muscle fiber images seems feasible and might allow automatic muscle fiber typing, and consequently, improve the characterization of skeletal muscles.

Adenosine Triphosphate↗

PubMed1999

Automatic extraction of corresponding points for the registration of medical images.

In this paper we address the problem of finding corresponding points in a reference and its subsequent image with the aim of registering the images. A whole-image-content-based automatic algorithm for extracting point pairs from 2-D monomodal medical images has been developed. The properties of point distinctiveness, point pair similarity, and point pair consistency have been incorporated into the steps which lead to the automatic extraction and weighting of point pairs. The selection of the most distinctive points of the reference image, and the search for their corresponding points in the subsequent image, have two things in common. First, the local operator by which the distinctive points are selected mimics the template matching used to find the corresponding points. Second, the same similarity measure is used for both tasks. We have applied the algorithm to a variety of computer-generated and real medical images, and have both qualitatively and quantitatively evaluated its performance. The results show that the proposed automatic algorithm for point extraction is accurate and robust and that it may significantly improve on the accuracy, reproducibility, and speed of the manual extraction of corresponding points.

Algorithms↗

PubMed1998

Automated segmentation of muscle fiber images using active contour models.

The cross-sectional area of different fiber types is an important anatomic feature in studying the structure and function of healthy and diseased human skeletal muscles. However, such studies are hampered by the thousands of fibers involved when manual segmentation has to be used. We have developed a semiautomatic segmentation method that uses computational geometry and recent computer vision techniques to significantly reduce the time required to accurately segment the fibers in a sample. The segmentation is achieved by simply pointing to the approximate centroid of each fiber. The set of centroids is then used to automatically construct the Voronoi polygons, which correspond to individual fibers. Each Voronoi polygon represents the initial shape of one active contour model, called a snake. In the energy minimization process, which is executed in several stages, different external forces and problem-specific knowledge are used to guide the snakes to converge to fiber boundaries. Our results indicate that this approach for segmenting muscle fiber images is fast, accurate, and reproducible compared with manual segmentation performed by experts.

Adult↗

PubMed1997

Evaluation of three contrast correction methods for digital subtraction in dental radiography: an in vitro study.

In the present in vitro study we test the efficacy of three most often used contrast correction methods to reduce contrast mismatches that can adversely affect digital subtraction in dental radiography. Five radiographs of the lower molars of a beagle dog with an included reference aluminium wedge were radiographed with different exposure times, captured by a monochrome CCD video camera and digitized. To study only the contrast correction effects, the influences of projective geometry and physical noise from the camera and the analog-to-digital conversion were eliminated by simulating bone loss in digital copies of the five reference radiographic images. Each copy in which loss was simulated was contrast corrected by all methods and subtracted from its original image. Four parameters were defined to test the potential of a method to correct grey level values between two images without corrupting real changes. The ODTF (optical density thickness function) method, which is based on a function relating grey level values of the aluminium wedge image and the corresponding thicknesses of the wedge, induced less contrast correction error than the CDF (cumulative density function) and the LSQA (least square quadratic approximation) methods. Therefore, the ODTF method may detect more subtle changes than the other two methods. The experiments indicate that less error is induced by a contrast correction method which uses a grey level mapping function based on the density distribution in a region representing a reference structure. Moreover, CDF, ODTF, and LSQA functions obtained from the reference structure density distribution may be applied for objective contrast enhancements and for standardization of image quality, while the ODTF function also allows bone change volume estimations.

Biophysical Phenomena↗

PubMed1996

Determination of the femoral and pelvic geometrical parameters that are important for the hip joint contact stress: differences between female and male.

The difference between male and female femoral and pelvic geometry was studied by considering some geometrical parameters such as interhip distance, inclination of the crista iliaca, diameter of the femoral head and centre-edge angle of Wiberg. The values of these parameters were determined for 79 healthy female and 21 healthy male subjects. Standard anterior-posterior radiographs were used and processed by the computer-aided system. The results show some important sex differences in femoral and pelvic geometrical parameters which determine the hip joint contact stress.

Female↗

PubMed1996

Energy metabolism of fibre types within fascicles of human muscles.

In human latissimus dorsi muscle a preponderance of type 2b fibres in the first fascicle layer and of type 1 fibres in the second layer was found. NADH-dehydrogenase (NADH) and alpha-glycerophosphate dehydrogenase (GPDH) which were measured histophotometrically in type 1, 2a, and 2b fibres showed either extreme or only partial overlapping regarding the activity of metabolic enzymes. In different fascicle layers the average activity of both enzymes did not differ significantly among the fibres of the same type, neither did the NADH and GPDH activity of type 2a and 2b.

Adolescent↗

PubMed1996

Contrast matching techniques for digital subtraction radiography: an objective evaluation.

Digital subtraction radiography (DSR) enables the detection of subtle early detrimental effects of periodontal disease as well as the evaluation of the effects of therapy. However, the differences between two radiographs due to alignment and contrast errors must be kept at minimum. In the present in vitro study we test the efficacy of three basic contrast correction methods in the reduction of contrast mismatches which can adversely affect a subtracted image. The ODTF (Optical Density Thickness Function) method, which is based on a function relating grey level values of the aluminium wedge image and the corresponding thickness of the wedge, induced less contrast correction error than the CDF (Cumulative Density Function) and the LSQA (Least Square Quadratic Approximation) methods. Moreover, CDF, ODTF, and LSQA functions obtained from the reference structure density distribution may be applied for objective contrast enhancements and for standardisation of image quality, while the ODTF function allows also bone change volume estimations.

Animals↗

PubMed1995

Histochemical and morphometric characteristics of the normal human vastus medialis longus and vastus medialis obliquus muscles.

The histochemical and morphometric characteristics of the vastus medialis longus and vastus medialis obliquus muscles were studied and compared with data on vastus lateralis. Cross-sections of autopsied muscles from 9 healthy men, aged 18-44 y, who had died suddenly were analysed. Data were obtained on proportions, cross-sectional diameter, and on atrophy and hypertrophy factors, of type 1, 2a, 2b, and 2c fibres. The analysis showed that the anatomical differences and the different functional demands placed on vastus medialis longus and vastus medialis obliquus are also expressed in different proportions and sizes of fibre types in the two muscles. The proportion of type 1 fibres was significantly higher (P < 0.01), and the proportion of 2b fibres was significantly lower (P < 0.01) in vastus medialis longus than in vastus medialis obliquus. The diameters of type 1 and type 2a fibres were significantly smaller (P < 0.01) in vastus medialis longus than in vastus medialis obliquus, although the differences were small. Within muscles a nonrandom arrangement of fibre types existed with the deeper portions of the muscles having more type 1 fibres than the more superficial portions. The histochemical and morphometric characteristics of vastus lateralis and vastus medialis obliquus show great similarity, reflecting the common function of both muscles which is taking part in transverse knee stability. Estimates of the limits of normality of the proportion, diameter, atrophy and hypertrophy factors of type 1, 2a, 2b, and 2c fibres might be useful in obtaining information on how different physiological and pathological conditions influence the proportion and size of different fibre types.(ABSTRACT TRUNCATED AT 250 WORDS)

Adenosine Triphosphatases↗

PubMed1994

Fibre size, atrophy, and hypertrophy factors in vastus lateralis muscle from 18- to 29-year-old men.

In order to study the size of muscle fibres, cross-sections of autopsied vastus lateralis muscle from 8 healthy men, aged 18 to 29 years, who have died suddenly were prepared and analyzed. Data were obtained on cross-sectional area, on lesser diameter, and on atrophy and hypertrophy factors of type 1 and type 2 fibres, subdivided into 2a, 2b, and 2c fibres. The difference in mean fibre size between type 1 and 2 fibres was not significant, whereas the differences between type 1 and 2b, type 1 and 2a, and type 2a and 2b fibres were significant. In the whole material type 2a fibres were the largest and type 2b fibres the smallest. There were considerable differences between post-mortem subjects. Because of these differences and the variability of all fibre types in respect of size in a sample the normal ranges of fibre size were large. The normal ranges and a continuous scale of weights were used to determine the atrophy and hypertrophy factors in each sample, and the upper limits of these factors accepted as being normal. The estimates of the limits of normality of the area, diameter, atrophy and hypertrophy factors of type 1, 2, 2a and 2b fibres reflect the situation in the vastus lateralis muscle of healthy young men. These values might be useful in studying physiological and pathological conditions influencing the size of different fibre types.

Adenosine Triphosphatases↗

PubMed1991

Arrangement of fiber types within fascicles of human vastus lateralis muscle.

A total of 106 fascicles at 6 predetermined areas of the vastus lateralis muscle from 9 healthy men, aged 18 to 40 years, were analyzed. Fibers in a fascicle were divided into layers according to their relation to the perimysium. In each layer the proportions of type 1 and 2, subdivided into 2a, 2b, and 2c fibers were determined and normalized by the fiber type proportion in the whole fascicle. A consistent arrangement of fiber types within the fascicles was obtained, regardless of subject, sampling site, fiber type proportion, and fascicle size. A high proportion of 2b fibers on the border, a prevalence of type 1 fibers in the layer beneath, and a rather uniform distribution of 2a fibers in all layers are the main characteristics of the distribution of fibers in a fascicle. Developmental processes in fiber type differentiation most probably constitute the basis for fiber type arrangement, which can further be influenced by local factors.

Adenosine Triphosphatases↗

PubMed1990

Muscle fibre types in the human vastus lateralis muscles: do symmetrical sites differ in their composition?

Muscle samples obtained from distinct symmetrical sites of left and right vastus lateralis muscles from 10 young healthy males were analysed. A computer-aided system was applied for the determination of muscle fibre types I, IIA, IIB and IIC and for their quantitative analysis. No statistically significant differences were established regarding percentage and surface area of all the four fibre types studied. In 2 cases of IIA and in one case of IIB fibre type significantly different diameters were measured between the left and right muscle. Regarding percentage and surface area no differences were proved between superficial and deep layers of the muscles observed. Fibre diameter but differed significantly in many muscles, there was no rule about whether it was larger in superficial or in deep muscle layers. One biopsy sample can not represent the whole muscle, especially as far as the relative number and surface area of the type IIA and IIB fibres are concerned. A slight asymmetry in fibre diameters of biopsy samples from both legs does not indicate any pathological change and can still be taken for normal.

Adult↗