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PubMed1984

A proposal for a flow cytometric data file standard.

The increasing complexity of multiparameter data collection and analysis in flow cytometry and the development of relatively inexpensive arc-lamp-based flow cytometers, which increases the probability that laboratories or institutions may have more than one type of instrument, creates a need for shareable analysis programs and for the transport of flow cytometric data files within an installation or from one institution to another. To address this need, we propose a standard file format to be used for all flow cytometric data. The general principles of this proposal are: (1) The data file will contain a minimum of three segments, TEXT, DATA, and ANALYSIS; (2) The TEXT and ANALYSIS segments consist of KEYWORDS, which are the names of data fields, and their values; (3) All TEXT is encoded in ASCII; (4) KEYWORDS and their values may be of any length; (5) Certain KEYWORDS will be standard, i.e., having specified formats to be recognized by all programs. The structure of the DATA segment will be uniquely defined by the values of KEYWORDS in the TEXT area. It may be in any bit resolution, facilitating compatibility between machines with different word length and/or allowing bit compression of the data. The structured nature of the TEXT area should facilitate management of flow cytometric data using existing data base management systems. The proposed file format has been implemented on VAX, PDP-11, and HP9920 based flow cytometry data acquisition systems.

Computers↗
PubMed1999

[Medical tele-imaging: a good chance for the future].

Tele-imaging is an important part of telemedicine: it includes the transmission of medical digital images and plays a role in all fields of telemedicine, such as expertise, consultation, teaching and research. Tele-imaging has been made possible through the digitalization of medical imaging. There are two possibilities: either digitalization of conventional radiological film or direct acquisition of digital images. The transmission of medical imaging requires a high data rate so as to obtain a good quality transmission of the initial images in a reasonable delay. In order to deal with the great amount of information to be stocked and transmitted, a compression of the data, without loss of information, is usually necessary. Interactivity is very important in all these types of transmissions. These tele-transmission techniques are already used world wide, especially in Japan and in the United States, to help in therapeutic or diagnostic decisions. In France, we have been performing real time interactive tele-imaging sessions between radiology and endocrinology departments of Hotel Dieu in Montréal and Hôpital Cochin in Paris. This experimental device includes a visual-conference link between the medical teams and a real time link between two CT scanners. The CT scanner slices appear simultaneously both CT scanner screens; it is even possible to guide a CT scanner examination using remote control from the other hospital. We have successfully repeated the experiment between Cochin and a private hospital in Paris. In the case of the "Prison de la Santé", we have been using telemedicine in order to reduce problematic transfers of prison inmates. Moreover, access to doctors in the prison is sometimes difficult. The system ensures the daily transmission of X-rays, which are immediately read by radiologists at Cochin. In the past, 50 to 70 X-rays had to be read during one weekly visit. Medical tele-imaging raises certain legal, ethical and economic issues, such as problems concerning confidentiality, the right to compensation, patient information. It would be interesting in this context to open a discussion on the possible dangers of telemedicine, its value for the patients and the physicians, its role in emergency care, and the possibility of creating imaging data storage that may help radiologists in making diagnoses, especially for unusual images. Drawbacks not to be ignored: Poor digital images could lead to difficulties in their reading and interpretation. There is still a debate as to whether tele-diagnosis is reliable or not. Further evaluations must be made to as certain the effectiveness of these techniques. A certain dehumanization of medicine due to an increase in the distance between the physician and patient is another difficult issue. The great number of people involved in the process of tele-imaging could confuse the issue of determining individual responsibility. Such consultations of experts may reduce the freedom of patients to choose their doctor. Tele-consultation must not be performed without the patient's consent. If consent was not obtained before tele-transmission, the patient should be informed after the procedure; and the use of tele-consultation should be mentioned in the report. The utilization of public networks could lead to the manipulation of data as well as undermine confidentiality. These pitfalls must be avoided. Lastly, the financial ramifications of these new technologies must not be overlooked.

Confidentiality↗
PubMed1993

Viscoelastic shear properties of articular cartilage and the effects of glycosidase treatments.

The objectives of this study were to determine the viscoelastic shear properties of articular cartilage and to investigate the effects of the alteration of proteoglycan structure on these shear properties. Glycosidase treatments (chondroitinase ABC and Streptomyces hyaluronidase) were used to alter the proteoglycan structure and content of the tissue. The dynamic viscoelastic shear properties of control and treated tissues were measured and statistically compared. Specifically, cylindrical bovine cartilage specimens were subjected to oscillatory shear deformation of small amplitude (gamma degrees = 0.001 radian) over a physiological range of frequencies (0.01-20 Hz) and at various compressive strains (5, 9, 12, and 16%). The dynamic complex shear modulus was calculated from the measurements. The experimental results show that the solid matrix of normal articular cartilage exhibits intrinsic viscoelastic properties in shear over the range of frequencies tested. These viscoelastic shear properties were found to be dependent on compressive strains. Our data also provide significant insights into the structure-function relationships for articular cartilage. Significant correlations were found between the material properties (the magnitude of dynamic shear modulus, the phase shift angle, and the equilibrium compressive modulus), and the biochemical compositions of the cartilage (collagen, proteoglycan, and water contents). The shear modulus was greatly reduced when the proteoglycans were degraded by either chondroitinase ABC or Streptomyces hyaluronidase. The results suggest that the ability of collagen to resist tension elastically provides the stiffness of the cartilage matrix in shear and its elastic energy storage capability. Proteoglycans enmeshed in the collagen matrix inflate the collagen network and induce a tensile prestress in the collagen fibrils. This interaction of the collagen and proteoglycan within the cartilage matrix provides the complex mechanism that allows the tissue to resist shear deformation.

Animals↗
PubMed1990

Visual artifacts in chromatically subsampled images.

Colors sampled in an array of pixels were converted into various luminance-chrominance representations, and the chrominance values were spatially subsampled to achieve a compression of the data. For viewing, the chrominance values were reinterpolated and then transformed back to RGB. For each of a range of image types and color spaces, we varied the chromatic sample spacing to determine how much compression would be possible before perceptual artifacts appeared, as determined by a panel of individual viewers. The spacing at which an image was mistaken half the time for a remembered original depended on image content and also on the color representation. Some color spaces, such as hue-lightness-saturation, a polar-coordinate color space, are inherently ill suited for chrominance averaging and produce noticeable artifacts on almost any image. Likewise, some images cannot be subsampled satisfactorily, regardless of the color space used. In general, however, images with 16-fold reduction in the amount of chrominance information (that is, a factor of 4 in each spatial direction) are still satisfactory in appearance.

Color↗
PubMed2002

Progressive changes in neurofilament proteins and growth-associated protein-43 immunoreactivities at the site of cervical spinal cord compression in spinal hyperostotic mice.

STUDY DESIGN: Immunohistochemical examination of the expression and localization of neurofilament (NF) proteins and growth-associated protein (GAP)-43 in spinal hyperostotic (twy/twy) mice with progressive compression of the cervical spinal cord. OBJECTIVE: To determine the biologic functions of NF proteins and GAP-43 in the mouse cervical spinal cord during chronic mechanical compression. SUMMARY OF BACKGROUND DATA: The pathologic and repair process in the chronically compressed spinal cord are understood poorly. The present authors hypothesized that there existed an increased expression of NF proteins and GAP-43 in twy/twy mice during the lengthy period of spinal cord compression, which resembles compressive myelopathy. METHODS: The cervical spinal cords of 54 twy mice (aged 8 weeks [n = 18], 14 weeks [n = 18], and 20 weeks [n = 18]) and 18 control animals were examined histologically. Using appropriate antibodies, sections were also stained immunohistochemically for NF proteins and GAP-43. RESULTS: Separation of the myelin sheath from the axon and axonal swelling with deformation were detected in the anterior and lateral funiculi of the spinalcords of 20-week-old twy/twy mice. No such changes were noted in 8-week-old twy mice. In twy/twy mice aged 8 and 14 weeks with mild-to-moderate compression, weak immunoreactivities (mainly in the white matter) for NF proteins and GAP-43 were noted; however, in 20-week-old twy/twy mice, these axons stained strongly positive and immunoreactive swollen axons were present. The relative area of GAP-43 immunoreactive axons gradually increased between 8 and 20 weeks in each column, particularly in the anterior and lateral funiculi in the contralateral side of compression. CONCLUSIONS: The results showed that the expression of NF proteins and GAP-43 in the white matter increased proportionally with the magnitude of spinal cord compression, and indicated the possible involvement of GAP-43 in both axonal degeneration and repair processes in the chronically compressed spinal cord.

Aging↗
PubMed2000

Performance analysis of a new semiorthogonal spline wavelet compression algorithm for tonal medical images.

Lossy image compression is thought to be a necessity as radiology moves toward a filmless environment. Compression algorithms based on the discrete cosine transform (DCT) are limited due to the infinite support of the cosine basis function. Wavelets, basis functions that have compact or nearly compact support, are mathematically better suited for decorrelating medical image data. A lossy compression algorithm based on semiorthogonal cubic spline wavelets has been implemented and tested on six different image modalities (magnetic resonance, x-ray computed tomography, single photon emission tomography, digital fluoroscopy, computed radiography, and ultrasound). The fidelity of the reconstructed wavelet images was compared to images compressed with a DCT algorithm for compression ratios of up to 40:1. The wavelet algorithm was found to have generally lower average error metrics and higher peak-signal-to-noise ratios than the DCT algorithm.

Algorithms↗
PubMed2000

Adaptive vector quantisation for electrocardiogram signal compression using overlapped and linearly shifted codevectors.

A discrete semi-periodic signal can be described as x(n) = x(n + T + delta T) + delta x, [symbol: see text] n, where T is the fundamental period, delta T represents a random period variation, and delta x is an amplitude variation. Discrete ECG signals are treated as semi-periodic, where T and delta x are associated with the heart beat rate and the baseline drift, respectively. These two factors cause coding inefficiency for ECG signal compression using vector quantisation (VQ). First, the periodic characteristic of ECG signals creates data redundancy among codevectors in a traditional two-dimensional codebook. Secondly, the fixed codevectors in traditional VQ result in low adaptability to signal variations. To solve these two problems simultaneously, an adaptive VQ (AVQ) scheme is proposed, based on a one-dimensional (1D) codebook structure, where codevectors are overlapped and linearly shifted. To further enhance the coding performance, the delta x term is extracted and encoded separately, before 1D-AVQ is applied. The data in the first 3 min of all 48 ECG records from the MIT/BIH arrhythmic database are used as the test signals, and no codebook training is carried out in advance. The compressed data rate is 265.2 +/- 92.3 bits s-1 at 10.0 +/- 4.1% PRD. No codebook storage or transmission is required. Only a very small codebook storage space is needed temporarily during the coding process. In addition, the linearly shifted nature of codevectors makes this easier to be hardware implemented than any existing AVQ method.

Arrhythmias, Cardiac↗
PubMed1989

[Experimental data on the morphogenesis of the spinal compression syndrome in congenital scoliosis].

The authors have made a roentgenologic and histologic study of the preparations of the vertebral columns of 13 rats with congenital scoliosis born to the rats who had been administered a teratogenic drug (6-merkaptopurin) during their pregnancy. In part of the rats the spinal deformations were accompanied by pathologic changes in the vertebrae and in the discs and by an abrupt narrowing (flattening) of the vertebral canal which caused disturbance in the blood flow in the mater spinalis, edema and sclerosis of the epidural space, hypoxia of the neurons, atrophy and glial and cicatrix substitution of the spinal cord tissue in the area of the curvature. The observed clinical picture of the compression spinal syndrome (posterior paraparesis with disturbed functions of the organs of the pelvis) reminded of similar disturbances in the patients with severe congenital kyphoscoliosis.

Animals↗
PubMed1977

[Biostatical and biomathematical evaluation of morphometric data--illustrated on the example of the relationship between axon diameter and thickness of the myelin sheat. I. 1st data evaluation step: empiric regression].

Application of the biostatistical procedure of empirical regression on a first data processing stage is demonstrated by examples from morphometrical research concerning the connection between axon caliber and thickness of myelin sheat of nerve fibers. This mathematical kind of describing connections between continuous random variables offers advantages which are discussed under the aspects of information compressing, of automatic data processing, and of providing objective basis for the process of data handling and decision making of further evaluations.

Animals↗
PubMed2001

Use of teleoptometry to evaluate acceptability of rigid gas-permeable contact lens fits.

BACKGROUND: Teleoptometry involves the transmission of digitized optometric information from a remote site for analysis by an expert. This project assessed computer compression of video data showing contact lens fitting relationships and the transmission of these data to a specialist for evaluation METHODS: Fifty-five sets of video clips showing dynamic fluorescein patterns of rigid gas-permeable lens fits, topographic corneal maps, and basic information on lens parameters were evaluated-live and again after digitization and electronic compression-by a contact lens specialist. The evaluator was asked to determine whether lens fit was acceptable and, if not, how the lens parameters should be changed. RESULTS: Comparison of lens evaluations made live versus compressed showed agreement on fit acceptability for approximately 80% of the subject/lens combinations. When the evaluator concluded for both presentations that the lens was unacceptable, the same change in lens parameters was recommended 67% of the time. DISCUSSION: Agreement for the majority of live and compressed video observations suggests that teleoptometric consultation on contact lens fitting is feasible. When technology advances to the point at which large files can be sent quickly via the Internet, it is likely the practice of transmitting video clips and other information to obtain fitting assistance will become commonplace.

Adult↗
PubMed2000

Physical characteristics of the ECAT EXACT3D positron tomograph.

The 'EXACT3D' positron tomograph, which is now in routine clinical research use, was developed with the aim of achieving unprecedented sensitivity, high spatial and temporal resolution and simplicity of design using proven detector technology. It consists of six rings of standard detector blocks (CTI/Siemens EXACT HR+) with 4.39 mm x 4.05 mm x 30 mm elements, giving an axial field of view (FOV) of 23.4 cm. This extended FOV and the absence of interplane septa and retractable transmission rod sources has allowed greatly simplified gantry and detector cassette design. Operation in exclusive 3D mode requires an alternative to the conventional coincidence method for transmission scanning, and a single photon approach using a hydraulically driven 137Cs point source has been implemented. The tomograph has no other moving parts. A single time frame of data without any compression is very large (> 300 Mbyte) and two approaches are employed to overcome this difficulty: (a) adjacent sinograms can be summed automatically into different combinations and (b) listmode (event-by-event) acquisition has been instituted, which is both storage efficient (particularly for acquisition of sparse data sets) and maximizes temporal resolution. The high-speed I/O and computing hardware can maintain a sustained acquisition rate of about 4 million coincidence events per second. A disadvantage of the large axial FOV in 3D is the increased sensitivity to activity outside the coincidence FOV. However, this can be minimized by additional side shielding. The mean spatial resolution is 4.8 +/- 0.2 mm FWHM (transaxial, 1 cm off-axis) and 5.6 +/- 0.5 mm (axial, on-axis). Its absolute efficiency is 5.8% for a line source in air (just spanning the axial FOV) and 10% for a central point source (with thresholds of 350-650 keV). For a uniform 20 cm diameter cylinder, the efficiency is 69 kcps kBq(-1) ml(-1) (after subtraction of a scatter fraction of 42%). Sensitivity relative to the EXACT HR+ (with four rings of blocks) is 2.5 (3D) and 12 (2D) times respectively. The rate of random events in blood flow studies in the brain and body, using 15O-labelled water, can be controlled by limiting the administered dose and inserting additional side shielding.

Cesium Radioisotopes↗
PubMed2004

Interpretation of surface dilational elasticity data based on an intrinsic two-dimensional interfacial compressibility model.

The present analysis shows that the introduction of intrinsic two-dimensional compressibility of a surfactant adsorption layer allows a much better interpretation of experimental data on the limiting (high-frequency) elasticity and characteristic frequency of diffusional relaxation than models using Frumkin's or other adsorption isotherms. The proposed model describes experimental data on surface dilational elasticity, as well as on surface pressure, sufficiently well at low and high surfactant concentrations, assuming the Lucassen and van den Tempel model of surface dilational elasticity is realized.

Journal Article↗
PubMed1998

A transversely isotropic biphasic model for unconfined compression of growth plate and chondroepiphysis.

Using the biphasic theory for hydrated soft tissues (Mow et al., 1980) and a transversely isotropic elastic model for the solid matrix, an analytical solution is presented for the unconfined compression of cylindrical disks of growth plate tissues compressed between two rigid platens with a frictionless interface. The axisymmetric case where the plane of transverse isotropy is perpendicular to the cylindrical axis is studied, and the stress-relaxation response to imposed step and ramp displacements is solved. This solution is then used to analyze experimental data from unconfined compression stress-relaxation tests performed on specimens from bovine distal ulnar growth plate and chondroepiphysis to determine the biphasic material parameters. The transversely isotropic biphasic model provides an excellent agreement between theory and experimental results, better than was previously achieved with an isotropic model, and can explain the observed experimental behavior in unconfined compression of these tissues.

Animals↗
PubMed2004

Immobilized probe and glass surface chemistry as variables in microarray fabrication.

BACKGROUND: Global gene expression studies with microarrays can offer biological insights never before possible. However, the technology possesses many sources of technical variability that are an obstacle to obtaining high quality data sets. Since spotted microarrays offer design/content flexibility and potential cost savings over commercial systems, we have developed prehybridization quality control strategies for spotted cDNA and oligonucleotide arrays. These approaches utilize a third fluorescent dye (fluorescein) to monitor key fabrication variables, such as print/spot morphology, DNA retention, and background arising from probe redistributed during blocking. Here, our labeled cDNA array platform is used to study, 1) compression of array data using known input ratios of Arabidopsis in vitro transcripts and arrayed serial dilutions of homologous probes; 2) how curing time of in-house poly-L-lysine coated slides impacts probe retention capacity; and 3) the retention characteristics of 13 commercially available surfaces. RESULTS: When array element fluorescein intensity drops below 5,000 RFU/pixel, gene expression measurements become increasingly compressed, thereby validating this value as a prehybridization quality control threshold. We observe that the DNA retention capacity of in-house poly-L-lysine slides decreases rapidly over time (~50% reduction between 3 and 12 weeks post-coating; p < 0.0002) and that there are considerable differences in retention characteristics among commercially available poly-L-lysine and amino silane-coated slides. CONCLUSIONS: High DNA retention rates are necessary for accurate gene expression measurements. Therefore, an understanding of the characteristics and optimization of protocols to an array surface are prerequisites to fabrication of high quality arrays.

Animals↗
PubMed2004

Evaluation of the influence of image compression to the automatic discrimination of histological images of skin lesions.

OBJECTIVES: Telemedicine offers the possibility to get the opinion of an expert within a short time. To reduce data transfer via a network image compression is recommended. The disadvantage of error-free compression is a low compression rate. On the other hand an increased compression rate affects the information content of the image. In this study we evaluated the influence of the compression rate on the automatic discrimination of histological skin lesions in dermatopathology. METHODS: To be independent from subjective reviewing by a dermatopathologist we used tissue counter analysis (TCA) for automatic discrimination of skin tissue. TCA is based on the partition of the image into square elements where the features are calculated out of each square element. 40 cases of benign common nevi and 40 cases of malignant melanoma were used as the study set. First TCA was applied to the uncompressed images to check the discrimination power of the method. Then in the next steps the method was applied to the images with successively higher compression rates. For image compression the wavelet compression was used, where the compression rate was determined by neglecting wavelet coefficients with a magnitude below a given threshold. The number of remaining wavelet coefficients was used as criteria for the compression rate. RESULTS: This study shows that TCA allows automated discrimination even at higher compression rates where only 6-18% of the wavelet coefficients are used for image reconstruction. The recognition rate at higher compression is better for malignant melanoma than for benign common nevi. CONCLUSION: The power of automated discrimination is not essential affected by wavelet image compression.

Austria↗
PubMed2004

Simultaneous storage of medical images in the spatial and frequency domain: a comparative study.

BACKGROUND: Digital watermarking is a technique of hiding specific identification data for copyright authentication. This technique is adapted here for interleaving patient information with medical images, to reduce storage and transmission overheads. METHODS: The patient information is encrypted before interleaving with images to ensure greater security. The bio-signals are compressed and subsequently interleaved with the image. This interleaving is carried out in the spatial domain and Frequency domain. The performance of interleaving in the spatial, Discrete Fourier Transform (DFT), Discrete Cosine Transform (DCT) and Discrete Wavelet Transform (DWT) coefficients is studied. Differential pulse code modulation (DPCM) is employed for data compression as well as encryption and results are tabulated for a specific example. RESULTS: It can be seen from results, the process does not affect the picture quality. This is attributed to the fact that the change in LSB of a pixel changes its brightness by 1 part in 256. Spatial and DFT domain interleaving gave very less %NRMSE as compared to DCT and DWT domain. CONCLUSION: The Results show that spatial domain the interleaving, the %NRMSE was less than 0.25% for 8-bit encoded pixel intensity. Among the frequency domain interleaving methods, DFT was found to be very efficient.

Algorithms↗