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PubMed2000

[Diagnostic algorithm and software for assessment and follow-up of dyspnea].

Breathlessness is a common complaint among patients with lung and heart diseases. It is a complex, multidimensional symptom with descriptive and quantitative aspects. The aim of this study is to constitute a set of questionnaires and scales for adequate assessment of dyspnea and their combination in diagnostic algorithm with various ranges. In order to achieve this goal, we developed a software product DISKO with the following characteristics: Includes the basic instruments for assessing dyspnea in all dimensions--verbal (descriptive) characteristic, everyday activities and exercise dyspnea, as well as its impact on the patients' quality of life. Proposes minimal, optimal and comprehensive algorithm for assessment and follow up of dyspnea. Presents a convenient interface and an ability to configure a flexible data base easy for browsing and handling. Proposed tests and algorithm for dyspnea assessment make it easier for the physician to diagnose and follow up chronically ill patients whose major complaint is dyspnea. The software product DISKO is compliant with the modern requirements for medical software and can be utilized in the process of diagnostic, education and scientific research.

Algorithms↗
PubMed2005

A semiautomated technique for evaluation of uterine peristalsis.

PURPOSE: To evaluate the capability of a newly developed semiautomatic analysis technique for evaluation of uterine peristalsis in comparison with visual assessment. MATERIALS AND METHODS: Cine magnetic resonance (MR) images were obtained from 16 normal volunteers in periovulatory phase. Sixty-eight studies were evaluated by both visual evaluation and by a semiautomated computer assisted software. The software was developed by applying an automated contour tracking method and enables objective analysis of frequency, amplitude, velocity, and direction. Assessments were based on: 1) the recognition of peristalsis, 2) peristaltic direction and frequency, and 3) the way of recognizing peristaltic direction. The data obtained by both modalities were compared with those of previously reported ultrasound (US) findings. RESULTS: Uterine peristalsis was identified in all studies by both objective and visual analyses. There was no significant difference in the identification of peristalsis, recognition of peristaltic directions, or peristaltic frequency (P > 0.05). Data were well in accordance with those in US literature. Peristaltic direction was recognized either by configuration change in the endometrium or by conduction of low signal intensity in the subendometrial myometrium and there was statistically no difference. CONCLUSION: Evaluation of uterine peristalsis by the semiautomatic analysis accorded well with the results obtained visual assessments and previous US findings.

Adult↗
PubMed1994

Analysing and developing object-oriented medical applications with HELIOS.

The HELIOS project promotes systematic reuse of existing software in a valuable methodological context. In order to reach this goal, the Analysis and Design Development Environment (ADDE) has been realized as a HELIOS component. This component includes the Analysis and Design sub-component (ADT), which supports the Rumbaugh's object-oriented methodology and the Insertion Retrieval Tool (IRT), which implements the reuse. The ADT sub-component enhances the quality of software development permitting a correct analysis, and design and a satisfactory documentation. The IRT Tool is dedicated to reuse by retrieving parts of existing applications (retrieve) and by qualifying elements just created or updated (insertion). A faceted system adapted to the medical domain allows an efficient search among the object database. Both tools contribute to reducing the cost of software development. This paper presents the design and the implementation of these tools in the HELIOS framework.

Database Management Systems↗
PubMed2005

[The quality of digital mammograms. Development and use of phantoms for optimal safety].

Digital imaging in mammography is becoming more and more accepted using both computed (CR) and direct radiography (DR). These techniques will soon be used in screening programs. Therefore, quality assurance for this technique is indispensable. The relevance of the current regulations, such as EPOC and the German QS-RL was investigated. For the investigation, a breast phantom and appropriate software were developed. Both were tested using digital mammography systems from six manufactures. Quality assurance parameters (such as contrast to noise ratio and contrast resolution) were calculated from these data sets. The results should be considered in future standards for mammography (IEC respectively DIN). In addition, this type of test procedure is time saving and enables a reduction in test devices, i. e. in costs.

Breast Neoplasms↗
PubMed2000

Health-effects related structure-toxicity relationships: a paradigm for the first decade of the new millennium.

Prediction of the effects of industrial chemicals to humans will be an area of increasing concern in the next century. The role of quantitative structure-activity relationships (QSARs) is to aid in the prediction of effects by determination of the limits of variation in structure that are consistent with the production of a specific toxic effect and define the ways in which alterations in structure influences toxicity. The paradigm followed in the development of QSARs for ecotoxic-endpoints has been successful as a direct result of the availability of in vivo toxicity data in which to build initial QSARs and validate surrogate test systems. However, the lack of quantitative in vivo toxicity data means this paradigm cannot be used in the prediction of human health-effect endpoints. Therefore, a new paradigm, which provides guidance in the use of predictive QSARs for health-effects that serves to circumvent the problems associated with the lack of whole-mammal toxicity data must be established. A scenario is given that provides for the development, standardization, and validation of health-effects related QSARs in the first decade of the 21st century. Due to the structural diversity and sheer number of industrial organic chemicals, assays used to garner health-effects data must be based on quantifiable, rapid, reliable, and inexpensive surrogate endpoints. New 'biotools' developed using modern molecular techniques will aid in the circumvention of in vivo health-effects data and provide measurable endpoints, which can be used as surrogates for health-effects endpoints. This has particular application in receptor-mediated toxicity and gene expression. The lack of whole-mammal health-effects data means that the standardization and validation, of these endpoints will be accomplished in novel ways. Databases garnered using modern biotools will allow the derivation of QSARs developed for validated surrogate health-effect endpoints. If QSARs are to be useful in bridging gaps in health-effects data, they must be based on accurate, reproducible data for a robust series of non-congeneric chemicals. The latter applies to both toxicity and descriptor values. Because health-effects are often the result of metabolic activation, if these new QSARs are to be meaningful, validated software for predicting metabolite formation must be incorporated. Lastly, once QSARs and software are developed and validated, they will need to be linked into some type of expert system.

Animals↗
PubMed1994

SORTEZ: a relational translator for NCBI's ASN.1 database.

The National Center for Biotechnology Information (NCBI) has created a database collection that includes several protein and nucleic acid sequence databases, a biosequence-specific subset of MEDLINE, as well as value-added information such as links between similar sequences. Information in the NCBI database is modeled in Abstract Syntax Notation 1 (ASN.1) an Open Systems Interconnection protocol designed for the purpose of exchanging structured data between software applications rather than as a data model for database systems. While the NCBI database is distributed with an easy-to-use information retrieval system, ENTREZ, the ASN.1 data model currently lacks an ad hoc query language for general-purpose data access. For that reason, we have developed a software package, SORTEZ, that transforms the ASN.1 database (or other databases with nested data structures) to a relational data model and subsequently to a relational database management system (Sybase) where information can be accessed through the relational query language, SQL. Because the need to transform data from one data model and schema to another arises naturally in several important contexts, including efficient execution of specific applications, access to multiple databases and adaptation to database evolution this work also serves as a practical study of the issues involved in the various stages of database transformation. We show that transformation from the ASN.1 data model to a relational data model can be largely automated, but that schema transformation and data conversion require considerable domain expertise and would greatly benefit from additional support tools.

Algorithms↗
PubMed2006

Design and implementation of a library-based information service in molecular biology and genetics at the University of Pittsburgh.

SETTING: In summer 2002, the Health Sciences Library System (HSLS) at the University of Pittsburgh initiated an information service in molecular biology and genetics to assist researchers with identifying and utilizing bioinformatics tools. PROGRAM COMPONENTS: This novel information service comprises hands-on training workshops and consultation on the use of bioinformatics tools. The HSLS also provides an electronic portal and networked access to public and commercial molecular biology databases and software packages. EVALUATION MECHANISMS: Researcher feedback gathered during the first three years of workshops and individual consultation indicate that the information service is meeting user needs. NEXT STEPS/FUTURE DIRECTIONS: The service's workshop offerings will expand to include emerging bioinformatics topics. A frequently asked questions database is also being developed to reuse advice on complex bioinformatics questions.

Computational Biology↗
PubMed2002

Fast and accurate leaf verification for dynamic multileaf collimation using an electronic portal imaging device.

A prerequisite for accurate dose delivery of IMRT profiles produced with dynamic multileaf collimation (DMLC) is highly accurate leaf positioning. In our institution, leaf verification for DMLC was initially done with film and ionization chamber. To overcome the limitations of these methods, a fast, accurate and two-dimensional method for daily leaf verification, using our CCD-camera based electronic portal imaging device (EPID), has been developed. This method is based on a flat field produced with a 0.5 cm wide sliding gap for each leaf pair. Deviations in gap widths are detected as deviations in gray scale value profiles derived from the EPID images, and not by directly assessing leaf positions in the images. Dedicated software was developed to reduce the noise level in the low signal images produced with the narrow gaps. The accuracy of this quality assurance procedure was tested by introducing known leaf position errors. It was shown that errors in leaf gap as small as 0.01-0.02 cm could be detected, which is certainly adequate to guarantee accurate dose delivery of DMLC treatments, even for strongly modulated beam profiles. Using this method, it was demonstrated that both short and long term reproducibility in leaf positioning were within 0.01 cm (1sigma) for all gantry angles, and that the effect of gravity was negligible.

Calibration↗
PubMedDate not supplied

Topographic matching of selected donor and recipient sites for osteochondral autografting of the articular surface of the femoral condyles.

The purpose of this study was to define the topography of the articular surface of the femoral condyles and to develop a method for computerized topographic matching of donor and recipient sites for osteochondral transplantation. The condyles of seven fresh cadaveric femurs were mounted on the rotating stage of a laser-based coordinate measuring machine. An anatomic coordinate system defining the articular surface of the condyles was created. Customized software was developed to allow selection and topographic matching of osteochondral graft donor and recipient sites from any location on the surface of the condyles. For cartilage defects within the weightbearing portions of the medial or lateral femoral condyles, grafts taken from sites from the most medial or lateral portions of the patellar groove provided a significantly better topographic match than did grafts taken from the central intercondylar notch.

Adult↗
PubMed2006

MIDAS: software for analysis and visualisation of interallelic disequilibrium between multiallelic markers.

BACKGROUND: Various software tools are available for the display of pairwise linkage disequilibrium across multiple single nucleotide polymorphisms. The HapMap project also presents these graphics within their website. However, these approaches are limited in their use of data from multiallelic markers and provide limited information in a graphical form. RESULTS: We have developed a software package (MIDAS - Multiallelic Interallelic Disequilibrium Analysis Software) for the estimation and graphical display of interallelic linkage disequilibrium. Linkage disequilibrium is analysed for each allelic combination (of one allele from each of two loci), between all pairwise combinations of any type of multiallelic loci in a contig (or any set) of many loci (including single nucleotide polymorphisms, microsatellites, minisatellites and haplotypes). Data are presented graphically in a novel and informative way, and can also be exported in tabular form for other analyses. This approach facilitates visualisation of patterns of linkage disequilibrium across genomic regions, analysis of the relationships between different alleles of multiallelic markers and inferences about patterns of evolution and selection. CONCLUSION: MIDAS is a linkage disequilibrium analysis program with a comprehensive graphical user interface providing novel views of patterns of linkage disequilibrium between all types of multiallelic and biallelic markers.

Algorithms↗
PubMed2006

Localization: conventional and CT simulation.

Recent developments in imaging and computer power have led to the ability to acquire large three dimensional data sets for target localization and complex treatment planning for radiation therapy. Conventional simulation implies the use of a machine capable of the same mechanical movements as treatment units. Images obtained from these machines are essentially two dimensional with the facility to acquire a limited number of axial slices to provide patient contours and tissue density information. The recent implementation of cone beam imaging on simulators has transformed them into three dimensional imaging devices able to produce the data required for complex treatment planning. The introduction of computed axial tomography (CT) in the 1970s was a step-change in imaging and its potential use in radiotherapy was quickly realised. However, it remained a predominantly diagnostic tool until modifications were introduced to meet the needs of radiotherapy and software was developed to perform the simulation function. The comparability of conventional and virtual simulation has been the subject of a number of studies at different disease sites. The development of different cross sectional imaging modalities such as MRI and positron emission tomography has provided additional information that can be incorporated into the simulation software by image fusion and has been shown to aid in the delineation of tumours. Challenges still remain, particularly in localizing moving structures. Fast multislice scanning protocols freeze patient and organ motion in time and space, which may lead to inaccuracy in both target delineation and the choice of margins in three dimensions. Breath holding and gated respiration techniques have been demonstrated to produce four-dimensional data sets that can be used to reduce margins or to minimize dose to normal tissue or organs at risk. Image guided radiotherapy is being developed to address the interfraction movement of both target volumes and critical normal structures. Whichever method of localization and simulation is adopted, the role of quality control is important for the overall accuracy of the patient's treatment and must be adapted to reflect the networked nature of the process.

Artifacts↗
PubMed2001

Computer-assisted ECG interpretation for confirmation of premature atrial complexes.

UNLABELLED: Current programs for computerized ECG analysis are not interactive. We developed custom software for computer-assisted ECG interpretation that functioned interactively with an observer directing the computerized process. The software was first used for recognition of PACs superimposed on ST-T waveforms. The interactive process included 6 steps. 1) The computer displayed the 12-lead ECG and the user selected the most frequent QRS-T waveforms for averaging. 2) The computer generated and displayed the averaged QRS-T waveform. 3) The user selected waveforms suspected to have PACs superimposed on the ST-T segments. 4) The computer generated and displayed the difference waveform by subtracting the average waveform from the suspect waveforms. 5) The user recognized and p-waves in the difference waveform and marked the onset and offset by positioning the cursor and clicking. 6) The computer then measured p-wave amplitudes, durations, and areas and displayed the recognized p-wave. The program was developed using digital data from 2 ECGs and tested on 39 ECGs with suspected PACs and 26 control ECGs. RESULTS: The software and user interaction recognized 79 PACs in the suspect group. Control ECGs were analyzed using 3 complexes with the same leads and onsets as the test group. Of the 79 PACs found in the suspect group, mean values included an area under the curve of 4.0 +/- 3.2 microV-s for the test group versus 0.4 +/- 0.4 microV-s for the control (P < 0.001) and peak-to-trough voltage amplitudes of 104 +/- 66 microV versus 15 +/- 7 microV for the control (P < 0.001). The average time of onset of the premature complexes was 282 +/- 120 msec, and their duration was 100 +/- 28 msec. CONCLUSION: Custom software combined the superior human pattern recognition with the digital signal processing of the computer. This enhanced recognition of ectopic atrial activity.

Atrial Premature Complexes↗
PubMed2007

Objective measurement of backscattered light from the anterior and posterior cornea in vivo.

PURPOSE: To develop an objective and repeatable method of measuring corneal backscattered light from different depths of the cornea in vivo. METHODS: A modified slit lamp ("scatterometer"), with a video camera and synchronous white strobe light, was used to capture images of a 0.1-mm-wide slit beam through the cornea. Image analysis software was developed to measure backscatter from digitized high-magnification images of 82 normal corneas of 41 subjects. Forty eyes of 20 of the same subjects were examined again after 1 month. Mean backscatter from the anterior, middle, and posterior thirds of the cornea was compared between repeated measurements, and expressed in arbitrary scatter units (SU). RESULTS: Backscatter in the anterior third of the cornea was 451 +/- 42 SU (mean +/- SD, n = 82), from the middle third was 274 +/- 29 SU (n = 82), and from the posterior third was 242 +/- 28 SU (n = 82). The difference in backscatter measured a month apart was 5 +/- 27 SU (P = 0.34), 2 +/- 17 SU (P = 0.42), and 0 +/- 15 SU (P = 0.95) in the anterior, middle, and posterior thirds of the cornea, respectively. Minimum detectable differences between measurements were 12, 8, and 7 SU in the anterior, middle and posterior thirds, respectively (alpha = 0.05, beta = 0.20, n = 40). CONCLUSIONS: Backscatter can be measured at different depths of the cornea from high-magnification digitized images of a narrow slit beam through the cornea. The method is objective and repeatable and can be applied in prospective studies of deep and posterior lamellar keratoplasty.

Adult↗
PubMed1985

Computerized registration of epidemiological data from intraoral radiographs.

Software was developed for graphic registration of epidemiological dental data from intraoral radiographs. The measured variables included marginal bone level in relation to tooth and root length as well as proximal caries and restoration areas. Caries and peridontitis progress nowadays slowly in large populations. Registration methods must, therefore, offer high precision. The hard and software were first tested. After that the method's reliability or precision was studied. The precision of measuring marginal bone level as a per cent of total tooth or root length was found to vary between 0.3-4.3. The corresponding precision of measuring a caries area in relation to the whole crown area was 1.4%. Precision was also divided into its components and analysed in more detail. All registered tooth variables except the angle between the proximal marginal bone and the root surface gave satisfactory results indicating good reliability.

Adult↗
PubMed2001

A hybrid artificial neural network as a software sensor for optimal control of a wastewater treatment process.

For control and automation of biological treatment processes, lack of reliable on-line sensors to measure water quality parameters is one of the most important problems to overcome. Many parameters cannot be measured directly with on-line sensors. The accuracy of existing hardware sensors is also not sufficient and maintenance problems such as electrode fouling often cause trouble. This paper deals with the development of software sensor techniques that estimate the target water quality parameter from other parameters using the correlation between water quality parameters. We focus our attention on the preprocessing of noisy data and the selection of the best model feasible to the situation. Problems of existing approaches are also discussed. We propose a hybrid neural network as a software sensor inferring wastewater quality parameter. Multivariate regression, artificial neural networks (ANN), and a hybrid technique that combines principal component analysis as a preprocessing stage are applied to data from industrial wastewater processes. The hybrid ANN technique shows an enhancement of prediction capability and reduces the overfitting problem of neural networks. The result shows that the hybrid ANN technique can be used to extract information from noisy data and to describe the nonlinearity of complex wastewater treatment processes.

Automation↗
PubMed1993

A computerized neural network method for pattern recognition of cocaine signatures.

This article describes a practical procedure for rapidly searching a large database of cocaine signatures to identify database entries that closely resemble a given reference cocaine exhibit using a personal computer (PC). The procedure takes advantage of the pattern recognition capability of the multilayer perceptron neural network to identify similar cocaine signatures. A PC-based software implementation is now being used on a daily basis at the North Carolina State Bureau of Investigation (NCSBI) to aid forensic experts in identifying signatures that originate from the same batch. Intelligence reports generated from database searches have been useful to undercover agents in the field who are striving to build drug related conspiracy cases. This software was developed as a collaborative effort between the NCSBI and the Center for Systems and Engineering of the Research Triangle Institute.

Chromatography, Gas↗