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Confocal microscopy and three-dimensional reconstruction of thick, transparent, vital tissue.

The three-dimensional visualization of the 400 micron thick, transparent, in situ cornea is described to demonstrate the use of confocal light microscopy for noninvasive imaging of living cells and thick tissues in their normal, vital conditions. Specimen preparation and physiological stability, as well as light attenuation corrections are critical to data acquisition. The technique to provide mechanical stability of the specimen during the duration of the image acquisition is explained. A laser scanning confocal light microscope (LSCM) was used to obtain optical serial sections from rabbit eyes that were freshly removed and placed in a physiological Ringer's solution. This study demonstrates the capability of the confocal light microscope to obtain a series of high contrast images, with a depth resolution of one micron, across the full thickness of living, transparent tissue. The problems of nonisotropic sampling and the limited eight-bit dynamic range are discussed. The three-dimensional reconstructions were obtained by computer graphics using the volume visualization projection technique. The three-dimensional visualization of the cornea in the in situ eye is presented as an example of image understanding of thick, viable biological cells and tissues. Finally, the criterion of image fidelity is explained. The techniques of confocal light microscopy with its enhanced lateral and axial resolution, improved image contrast, and volume visualization provides microscopists with new techniques for the observation of vital cells and tissues, both in vivo and in vitro.

Animals↗

Localization of binding sites for laminin, heparan sulfate proteoglycan and fibronectin on basement membrane (type IV) collagen.

Rotary shadowing electron microscopy was used to examine complexes formed by incubating combinations of the basement membrane components: type IV collagen, laminin, large heparan sulfate proteoglycan and fibronectin. Complexes were analyzed by length measurement from the globular (COOH) domain of type IV collagen, and by examination of the four arms of laminin and the two arms of fibronectin. Type IV collagen was found to contain binding sites for laminin, heparan sulfate proteoglycan and fibronectin. With laminin the most frequent site was centered approximately 81 nm from the carboxy end of type IV collagen. Less frequent sites appeared to be present at approximately 216 nm and approximately 291 nm, although this was not apparent when the sites were expressed as a fraction of the length of type IV collagen to which they were bound. For heparan sulfate proteoglycan the most frequent site occurred at approximately 206 nm with a less frequent site at approximately 82 nm. For fibronectin, a single site was present at approximately 205 nm. Laminin bound to type IV collagen through its short arms, particularly through the end of the lateral short arms and to heparan sulfate proteoglycan mainly through the end of its long arm. Fibronectin bound to type IV collagen through the free end region of its arms. Using a computer graphics program, the primary laminin binding sites of two adjacent type IV collagen molecules were found to align in the "polygonal" model of type IV collagen, whereas with the "open network" model, a wide meshed matrix is predicted. It is proposed that basement membrane may consist of a lattice of type IV collagen coated with laminin, heparan sulfate proteoglycan and fibronectin.

Animals↗

Three-dimensional reconstruction of human femur using consecutive computer tomography images and simulated implantation system.

This study is concerned with the construction of a simulated implantation system (SIS) for a human femur using various algorithms of image processing and computer graphics. The SIS is the software which performs 3D visualization as well as various numeric analyses between the patient's femur and the artificial hip joint through certain stages of processing on consecutive CT images and projected images. We present the concrete methods that were to be implemented into the suggested prototype of SIS and the corresponding experimental results will also be shown.

Algorithms↗

Low-resolution models for ribosomal particles reconstructed from electron micrographs of tilted two-dimensional sheets.

Models of the whole ribosome (70S) and its large subunit (50S) were obtained at low resolution (47 and 28 A respectively) by three-dimensional image reconstruction using diffraction data collected from electron micrographs of two-dimensional ordered arrays. The comparison of the various reconstructed images, using interactive computer graphics, enabled the assessment of the reliability of the method, the derivation of the shape of the small subunit (30S) and the assignment of several functional features such as the probable path taken by the nascent protein chain, the presumed site for the process of biosynthesis of proteins, and a feasible mode for tRNA binding. The reconstructed models of the various ribosomal particles may be used for phasing of X-ray diffraction data at low resolution.

Chemical Phenomena↗

Tactical audio and acoustic rendering in biomedical applications.

Complexity of biomedical data requires novel sophisticated analysis and presentation methods. Sonification is used as a new information display in augmented reality systems to overcome problems of existing human-computer interface (e.g., opaque or heavy head-mounted displays, slow computer graphics, etc.). A novel taxonomy of sonification methods and techniques is introduced. We present our experience with tactical audio and acoustic rendering in biomedical applications. Tactical audio as an audio feedback is used as support for precise manual positioning of a surgical instrument in the operating room. Acoustic rendering is applied as an additional information channel and/or warning signal in biomedical signal analysis and data presentation.

Acoustics↗

Algorithm for the determination of projected urethral lumen cross-sections and shape functions.

A method used to obtain computer graphic representations of projected urethral lumen cross-sections is described. The cross-sectional area of the lumen is measured accurately at all stages of voiding. Two methods of background subtraction are considered, direct subtraction from nonvoiding x-rays and subtraction from a least squares regression line. The projected cross-sections are described by simple shape functions. These shape descriptors increase the technique's potential application by providing a quantitative measure of the projected cross-sections.

Computers↗

Three-dimensional wrist imaging: evaluation of functional and pathologic anatomy by computer.

The wrist has been studied morphologically and functionally using advanced technology. The osseous morphology of the wrist was investigated by computed tomography and surface reconstruction software. The functional behavior of the wrist in motion was studied using electromagnetic tracker technology. Three-dimensional imaging from CT scans is emerging as a research tool for the study of gross surface morphology, especially for osseous structures. One of the most demanding applications of this technology lies in the human wrist, because of its small size and inherent complexity. We have demonstrated some of the potential of computer graphics and three-dimensional surface reconstructions in the wrist for patients with osseous abnormalities. Acquisition of six-degree-of-freedom kinematic data to describe carpal motion has been made possible by new electromagnetic tracker technology. Analysis of these data in human wrist experiments revealed that the instantaneous center of rotation was not fixed in the head of the capitate, as was previously thought.

Adult↗

Design, synthesis, and evaluation of dioxane-based antiviral agents targeted against the Sindbis virus capsid protein.

Dioxane-based antiviral agents targeted to the hydrophobic binding pocket of Sindbis virus capsid protein were designed by computer graphics molecular modeling and synthesized. Virus production using SIN-IRES-Luc and capsid assembly were monitored to evaluate antiviral activity. A compound with a three-carbon linker chain connecting two dioxane moieties inhibited virus production by 50% at a concentration of 40 microM, while (R)-hydroxymethyldioxane inhibited virus production by 50% at a concentration of 1 microM. Both compounds were not cytotoxic in uninfected BHK cells at concentrations of 1mM.

Animals↗

Statistical characterization of real-world illumination.

Although studies of vision and graphics often assume simple illumination models, real-world illumination is highly complex, with reflected light incident on a surface from almost every direction. One can capture the illumination from every direction at one point photographically using a spherical illumination map. This work illustrates, through analysis of photographically acquired, high dynamic range illumination maps, that real-world illumination possesses a high degree of statistical regularity. The marginal and joint wavelet coefficient distributions and harmonic spectra of illumination maps resemble those documented in the natural image statistics literature. However, illumination maps differ from typical photographs in that illumination maps are statistically nonstationary and may contain localized light sources that dominate their power spectra. Our work provides a foundation for statistical models of real-world illumination, thereby facilitating the understanding of human material perception, the design of robust computer vision systems, and the rendering of realistic computer graphics imagery.

Contrast Sensitivity↗

Molecular modelling and 1H-NMR: ultimate tools for the investigation of tolbutamide: beta-cyclodextrin and tolbutamide: hydroxypropyl-beta-cyclodextrin complexes.

A structural study of the inclusion compound of tolbutamide (TBM) with beta-cyclodextrin (beta-CD) and hydroxypropyl-beta-cyclodextrin (HP-beta-CD) was attempted by means of 1H-nuclear magnetic resonance (1H-NMR) experiments and computer molecular modelling. To establish the stoichiometry and stability constant of the beta-CD:TBM complex, the continuous variation method was used. The presence of true inclusion complexes between TBM and beta-CD or HP-beta-CD in solution was clearly evidenced by the 1H-NMR technique. Changes in chemical shifts of H-3 and H-5 protons, located inside the CD cavity, associated with variations in the chemical shifts of TBM aromatic protons provided clear evidence of inclusion complexation, suggesting that the phenyl moiety of the drug molecule was included in the hydrophobic cavity of CDs. This view was further supported by the observation of intermolecular NOEs between TBM and beta-CD and by the aid of a molecular modelling program, which established the most probable structure of the complex. The molecular graphic computation confirmed that the minimum energy, positioning TBM relative to beta-CD, occurs when the aromatic ring of TBM is included within the beta-CD cavity by its wider side, leaving the aliphatic chain externally, which is in good agreement with the results of 1H-NMR studies.

2-Hydroxypropyl-beta-cyclodextrin↗

Computer aided photograph analyses in oral medicine--a pilot study.

In this methodological, pilot study the usefulness of computer aided photograph analyses (CAPA) was tested for the demonstration of intraoral tissue changes, registered by standardized, clinical close-up (2:1) photography. Individual effects of tobacco on, a.o., the blood vessel supply of the oral mucosa were, thus, documented photographically every five minutes after cigarette smoking and snuff-dipping respectively in three healthy volunteers, aged 45, 35 and 30 years. In the same way the effects of nicotine, released from a 4mg Nicorette chewing gum (Leo), were recorded in all test persons. The clinical photographs were transformed into digital images and analysed by means of computer graphics (Supernova 24.1 and IBM-AT; ART 2 programme) for comparative investigations of the series of pictures. The methods employed facilitated the demonstration of even minor tissue changes in the original photographs. Standardized macrophotography of the oral mucosa and subsequent CAPA-procedures may be valuable tools in interdisciplinary research with the purpose to visualize, a.o. drug-induced, vascular changes. The digitized images may be used for statistical analyses. Further improvements of the CAPA-technique are in progress.

Adult↗

FMTUTOR: a computer-aided instructional system for teaching fetal monitor interpretation.

FMTUTOR is a computer program for instruction in the interpretation of fetal monitor recordings. The system runs on IBM-PC-compatible microcomputers and uses text and computer graphics to illustrate and reinforce important concepts. By means of a 2-hour introductory tutorial session and generation and guided interpretation of an unlimited variety of tracings, it simulates one-on-one instructor-student interactions and allows rapid accumulation of a store of information and experience in monitor tracing interpretation. FMTUTOR is currently used to teach third- and fourth-year medical students at the University of New Mexico. Acceptance has been enthusiastic, and development of more advanced instructional systems targeting nurses, residents, and obstetricians is underway.

Computer-Assisted Instruction↗

Integration of 3-D medical imaging and rapid prototyping to create stereolithographic models.

This paper describes current research into the creation of solid models which replicate anatomical structures using rapid prototyping techniques. Stereolithography is particularly efficient in the production of highly-complex structures. This technique was applied to the fabrication of a plastic model of a human skull. A geometric definition of the object was obtained by transferring the three-dimensional medical image volume (x-ray CT) and processing the data on a computer graphics workstation. A 3-D biomedical visualisation software package (ANALYZETM) was used to perform segmentation of structures. A 3-D triangular-mesh representation of the selected structure was calculated and converted to a format suitable for processing and construction using stereolithography (SLA). Improvements in the quality of the anatomical model produced will result from improved data processing techniques. Future work is proposed to investigate the influence of imaging parameters and data processing techniques on the resultant plastic models.

Humans↗

The ultrastructure of yeast: cell wall structure and formation.

Yeasts are unicellular eukaryotes, and are used widely as a model system in basic and applied fields of life science, medicine, and biotechnology. The ultrastructure of yeast cells was first studied in 1957 and the techniques used have advanced greatly in the 40 years since then; an overview of these methods is first presented in this review. The ultrastructure of budding and dimorphic yeast cells observed with a scanning electron microscope (SEM) and a transmission electron microscope (TEM) after thin sectioning and freeze-etching are then described, followed by discussion of the regeneration of the cell wall of Candida albicans protoplasts detected by cryosectioning. C. albicans protoplasts are regenerated to synthesize microfibrils on their surface. They are aggregated into thicker bundles which are intermeshed, forming a wide-meshed network of long fibrils. These microfibrillar structures are chains of beta-1,3-glucan which are broken down after treatment with beta-1,3-glucanase. Morphologically identical microfibrils are synthesized in vitro by a cell-free system in which the active cell membrane fraction as a source of beta-1,3-glucan synthetase and UDP glucose as the sole substrate are used. The diameter of an elemental fibril of beta-glucan is estimated to be 2.8 nm from the pattern of autocorrelation of the image obtained by computer processing. In contrast, in the presence of aculeacin A the formation of normal fibrillar nets or bundles is significantly inhibited, resulting in the occurrence of short fibrils. These electron microscopic data suggest that aculeacin A inhibits not only the synthesis of beta-1,3-glucan but the aggregation of microfibrils of this polysaccharide, allowing formation of the crystalline structure. On the basis of the cumulative data obtained from the electron microscopic studies, we are led to the assumption that de novo synthesized beta-glucan chains might initially form fine particles which are then transformed into thin fibrils with single to multiple strands which appear to be oriented parallel to each other so that they develop into fibrillar structures. This process of assembly of beta-glucan molecules leads to the development of a fibrous network within the regenerating Candida cell wall. Third, the mechanism of cell wall formation is shown by low-voltage (LV) SEM and TEM, using various techniques and computer graphics, of the regeneration system of Schizosaccharomyces pombe protoplasts: after 10 min of regeneration, the protoplasts begin to grow fibrillar substances of a beta-glucan nature, and a fibrillar network covers the surface of all protoplasts. The network is originally formed as fine particles on the protoplast surface and these are subsequently lengthened to microfibrils 2 nm thick. The microfibrils twist around each other and develop into 8 nm thick fibrils forming flat bundles 16 nm thick. Interfibrillar spaces are gradually filled with amorphous particles of an alpha-galactomannan nature and, finally, the complete cell wall is formed after 12 h. Treatment of reverting protoplasts with RuO4 provided clear TEM images of glucan fibrils with high electron density. The relationship between cell wall regeneration and intracellular organelles was examined by using serial thin sections stained with PATAg and computer-aided three-dimensional reconstruction. The secretory vesicles in a protoplast had increased markedly by 1.4, 3.4, and 5.8 times at 1.5, 3.0, and 5 h, respectively. Three-dimensional analysis indicates that Golgi apparatuses are located close together in the nucleus of the protoplast and are dispersed into the cytoplasm during the progress of cell wall formation.

Cell Wall↗

Reliability of skinfold calipers as a tool for measuring body fat in human beings.

Triceps skinfold thickness measured in ten adults aged 19 to 50 yr by a Holtain skinfold caliper, was compared with subcutaneous fat thickness obtained on cross-sections of the left upper arm by computerized axial tomography (CAT). The thickness of subcutaneous fat was measured on CAT scan film directly with the inbuilt computer graphic technique. The measurements taken on CAT scan film were found to be significantly higher (by 21-45%; P less than 0.001) than those by the skinfold calipers. Our findings suggest that skinfold calipers may not be very accurate tools for the assessment of body fat in human beings. Therefore, its use in the determination of body composition, for which great precision is required calls for re-thinking.

Adipose Tissue↗

H curves, a novel method of representation of nucleotide series especially suited for long DNA sequences.

In order to create an alternative to the customary letter-series representation of nucleotide sequences a novel method was developed based on computer graphics. In this new method, the information content of a nucleotide sequence is mapped into a three-dimensional space function (H curve) which can be displayed and manipulated conveniently. Even very long nucleotide sequences can be represented by compact H curves. Such curves are not only characteristic "fingerprints" of complex genetic messages but also embody important parameters concerning the distribution of nucleotides. H curves appear to be particularly suitable for the visual analysis and comprehension of both the local and the global features of long DNA sequences.

Base Sequence↗

Modelling of alpha-lactalbumin from the known structure of hen egg white lysozyme using molecular dynamics.

The prediction of protein conformation by homology is being widely pursued using interactive computer graphics. However, there have been a limited number of energy minimization and/or molecular dynamics studies for such predictions. This paper reports one such study on alpha-lactalbumin, a system that can be tested as the X-ray crystal structure has recently been determined. The differences in structure of the Ca2+ binding loop reported for the holo-protein (Stuart et al., Nature, 324 [1986] 84-87) and that predicted for the apoprotein could be attributed to the presence or absence of the Ca2+ ion.

Animals↗

Design of novel antiestrogens.

The physicochemical principle of "die and coin" complementarity proffered by Pauling and Delbruck and exemplified in Watson and Crick DNA was used to design new antineoplastic compounds. In search of an explanation for why certain molecules and not others are present in nature, biologically active small molecules were discovered to exhibit complementarity when inserted into cavities between base pairs in DNA. Ligands in the steroid/thyroid hormone/vitamin D family fit particularly well into the site 5'-dTdG-3'.5'-dCdA-3'. Degree of fit of various candidate compounds in the manner of a given hormone correlated with degree of hormonal activity. Hormone antagonists fit into the same site but in a different manner than the agonists. Computer graphics and energy calculations confirmed salient observations including the remarkable complementarity of estradiol and DNA. Using the above criteria, a new candidate antiestrogen, para-hydroxyphenyl-acetylamino-2,6-piperidinedione was successfully designed. Taken as a whole, these results coupled with recent independent findings raise the possibility that the mode of action of certain hormones and hormone antagonists may involve direct insertion into DNA mediated by classical protein receptors and other transcription factors.

Animals↗