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Positive, accurate animal identification.

Positive, accurate identification of animals and their products would be very helpful in livestock commerce, prevention of theft and fraud and in tracing animals and products to origin. Food safety, animal health, and prevention of epidemics, would be enhanced by combining identification with location. Identification may be by electronic chips, iris or retinal scans, antibody or DNA analysis. A cross listing of one or more means in a central repository would facilitate tracing origin of animals and build confidence in transactions of all kinds.

Animal Identification Systems↗

Simulation of ILD sensitive neurons in the inferior colliculus of the barn owl.

The barn owl (Tyto alba) uses interaural level difference (ILD) as a cue for the localization of sound. The first site of binaural convergence in the pathway that processes ILD is the ventral lateral lemniscus pars posterior (VLVp). Neurons in VLVp receive excitatory input from the contralateral nucleus angularis, and inhibitory input from the contralateral VLVp. Within the lateral shell of the inferior colliculus are ILD sensitive neurons that show maximum spike rate at a specific ILD value, with response falling off sharply on each side. Adolphs has developed a model of such lateral shell neurons based on anatomic and physiological data. In his model, lateral shell neurons receive inhibitory input from VLVp on both sides, and this inhibition, applied against a constant excitatory input, produces the observed two-sided response curves. We simulated, in Matlab 4, Adolphs' model, and obtained supporting results. Our simulation suggests that VLVp provides a repository of simple ILD filters from which higher centers construct more complex filters, including the single-peaked curves observed by Adolphs. The VLVp filters are organized along the inhibitory gradient, with broad filters ventral, sharp filters dorsal.

Animals↗

Clinician decisions and computers.

The clinician's decisions are subject to numerous distorting influences. Computer decision aids can help avoid these distortions by placing the clinician's limited personal experience into broader perspective through comparison with a larger repository of clinically relevant information; by making explicit the assumptions implied by his or her decisions; and by alerting the clinician whenever the decisions made do not appear consistent with these assumptions, with the available information or with the conventional rules of logic. Practical standards of performance with respect to the development, validation and clinical application of these decision aids are still in evolution, however, and a variety of ethical and legal issues have yet to be addressed. Despite the promise of computer decision aids, it remains to be seen whether their diffusion into medical practice will improve the quality and cost of health care.

Algorithms↗

The constraint based decomposition (CBD) training architecture.

The Constraint Based Decomposition (CBD) is a constructive neural network technique that builds a three or four layer network, has guaranteed convergence and can deal with binary, n-ary, class labeled and real-value problems. CBD is shown to be able to solve complicated problems in a simple, fast and reliable manner. The technique is further enhanced by two modifications (locking detection and redundancy elimination) which address the training speed and the efficiency of the internal representation built by the network. The redundancy elimination aims at building more compact architectures while the locking detection aims at improving the training speed. The computational cost of the redundancy elimination is negligible and this enhancement can be used for any problem. However, the computational cost of the locking detection is exponential in the number of dimensions and should only be used in low dimensional spaces. The experimental results show the performance of the algorithm presented in a series of classical benchmark problems including the 2-spiral problem and the Iris, Wine, Glass, Lenses, Ionosphere, Lung cancer, Pima Indians, Bupa, TicTacToe, Balance and Zoo data sets from the UCI machine learning repository. CBD's generalization accuracy is compared with that of C4.5, C4.5 with rules, incremental decision trees, oblique classifiers, linear machine decision trees, CN2, learning vector quantization (LVQ), backpropagation, nearest neighbor, Q* and radial basis functions (RBFs). CBD provides the second best average accuracy on the problems tested as well as the best reliability (the lowest standard deviation).

Algorithms↗

Generalized relevance learning vector quantization.

We propose a new scheme for enlarging generalized learning vector quantization (GLVQ) with weighting factors for the input dimensions. The factors allow an appropriate scaling of the input dimensions according to their relevance. They are adapted automatically during training according to the specific classification task whereby training can be interpreted as stochastic gradient descent on an appropriate error function. This method leads to a more powerful classifier and to an adaptive metric with little extra cost compared to standard GLVQ. Moreover, the size of the weighting factors indicates the relevance of the input dimensions. This proposes a scheme for automatically pruning irrelevant input dimensions. The algorithm is verified on artificial data sets and the iris data from the UCI repository. Afterwards, the method is compared to several well known algorithms which determine the intrinsic data dimension on real world satellite image data.

Algorithms↗

Design of a case control etiologic study of sarcoidosis (ACCESS). ACCESS Research Group.

Sarcoidosis is a chronic granulomatous disorder of unknown cause, characterized by activation of T-lymphocytes and macrophages. A Case Control Etiologic Study of Sarcoidosis (ACCESS) is a multicenter study designed to determine the etiology of sarcoidosis. The study organization includes 10 Clinical Centers, a Clinical Coordinating Center, specialized Core Laboratories, a Central Specimen Repository, and a Project Office at the National Heart, Lung, and Blood Institute. In addition to etiology, ACCESS will examine the socioeconomic status and clinical course of patients with sarcoidosis. We propose to enroll 720 newly diagnosed cases of sarcoidosis and compare them to 720 age, sex, and race matched controls and follow the first 240 cases for two years. Leads to the etiology of sarcoidosis have come from diverse sources: in clinical laboratory investigations, alveolitis has been found to precede granulomatous inflammation; in case control studies, familial aggregation has been identified; and in case reports, recurrence of granulomatous inflammation has been observed after lung transplantation. We describe the rationale for the study design based on genetic, environmental, infectious, and immune dysregulation hypotheses and the methods used for selecting controls. The cause may not prove to be a single, known exposure. Interactions of exposures with genetic predispositions would have important implications for our understanding of immune responses as well as the pathogenesis of sarcoidosis.

Adult↗

Holographic image archive.

This paper presents an associative technique for content-based retrieval into image archive, based on a computing paradigm called Multidimensional Holographic Associative Computing (MHAC). Unlike any prior Artificial Associative Memory (AAM), MHAC has the unique ability fo focus on any subject of pixels in the sample image and retrieve learned images based on the similarity of the visual objects. In addition, MHAC is adaptive, graciously accommodative of imprecision, efficient, parallelizable, scalable and optically realizable. Together, these excellent properties of MHAC offer a promising novel approach to a content-based search into massive image archives. The paper presents the necessary transformational steps to incorporate this new mechanism into a complete image archival and retrieval system. This is the first associative search approach for content-based retrieval in image repository. The results show that this search system is capable of retrievals by using pattern objects as small as 10-15% of the query image frame at better than 90% accuracy. This demonstrates the potential of MHAC for handing contest-based image applications far beyond the capability of current associative memories. The design, methodology and performance of this system have been illustrated in this paper through its application in managing a Medical Image Archive (MEDIA).

Algorithms↗

Evolutionary computing for knowledge discovery in medical diagnosis.

One of the major challenges in medical domain is the extraction of comprehensible knowledge from medical diagnosis data. In this paper, a two-phase hybrid evolutionary classification technique is proposed to extract classification rules that can be used in clinical practice for better understanding and prevention of unwanted medical events. In the first phase, a hybrid evolutionary algorithm (EA) is utilized to confine the search space by evolving a pool of good candidate rules, e.g. genetic programming (GP) is applied to evolve nominal attributes for free structured rules and genetic algorithm (GA) is used to optimize the numeric attributes for concise classification rules without the need of discretization. These candidate rules are then used in the second phase to optimize the order and number of rules in the evolution for forming accurate and comprehensible rule sets. The proposed evolutionary classifier (EvoC) is validated upon hepatitis and breast cancer datasets obtained from the UCI machine-learning repository. Simulation results show that the evolutionary classifier produces comprehensible rules and good classification accuracy for the medical datasets. Results obtained from t-tests further justify its robustness and invariance to random partition of datasets.

Adolescent↗

Transductive reliability estimation for medical diagnosis.

In the past decades, machine learning (ML) tools have been successfully used in several medical diagnostic problems. While they often significantly outperform expert physicians (in terms of diagnostic accuracy, sensitivity, and specificity), they are mostly not being used in practice. One reason for this is that it is difficult to obtain an unbiased estimation of diagnose's reliability. We discuss how reliability of diagnoses is assessed in medical decision-making and propose a general framework for reliability estimation in machine learning, based on transductive inference. We compare our approach with a usual (machine learning) probabilistic approach as well as with classical stepwise diagnostic process where reliability of diagnose is presented as its post-test probability. The proposed transductive approach is evaluated on several medical datasets from the University of California (UCI) repository as well as on a practical problem of clinical diagnosis of the coronary artery disease (CAD). In all cases, significant improvements over existing techniques are achieved.

Artificial Intelligence↗

Using Boolean reasoning to anonymize databases.

This paper investigates how Boolean reasoning can be used to make the records in a database anonymous. In a medical setting, this is of particular interest due to privacy issues and to prevent the possible misuse of confidential information. As electronic medical records and medical data repositories get more common and widespread, the issue of making sensitive data anonymous becomes increasingly important. A theoretically well-founded algorithm is proposed that via cell suppression can be used to make a database anonymous before releasing or sharing it to the outside world. The degree of anonymity can be tailored according to the specific needs of the recipient, and according to the amount of trust we place in the recipient. Furthermore, the required measure of anonymity can be specified as far down as to the individual objects in the database. The algorithm can also be used for anonymization relative to a particular piece of information, effectively blocking deterministic inferences about sensitive database fields.

Adult↗

The structure and function of normal and abnormal haemoglobins.

This chapter reviews general aspects of the normal human haemoglobins which include those predominantly present in the embryo, the fetus and newborn baby, and in the normal adult. Special emphasis is given to factors which affect the levels of fetal haemoglobin in the adult because increased percentages of Hb F can be of great benefit to adults with certain haemoglobinopathies such as sickle cell anaemia and beta-thalassaemia. A review of the numerous Hb variants published since the discovery of Hb S in 1959 reveals a steady stream of newly detected abnormalities; most of these are the result of single-point mutations in the alpha-, beta-, gamma-, or delta-globin genes. Of the more than 600 variants listed in a repository, some 200 have clinical significance because of a decreased stability, a change in functional properties, among others. Methodology developed for the detection and quantitation of normal and abnormal Hb components has been greatly modified during the past 30 years; isoelectrofocusing and different fast developing micro chromatographic procedures are the methods of choice. Analyses of DNA isolated from the white cells has become most useful for the final characterization of the variants; this methodology consists of amplification of a desired segment of DNA and identification of a mutation with labelled oligonucleotide probes. Additional methods include sequence determination of this amplified DNA and identification of known mutations with an allele specific amplification procedure.

Adult↗

Investigation of irradiated soil byproducts.

The high dose irradiation of windblown soil deposited onto the surface of spent nuclear fuel is of concern to long-term fuel storage stability. Such soils could be exposed to radiation fields as great as 1.08 x 10(-3) C/kg-s (15,000 R/hr) during the 40-year anticipated period of interim dry storage prior to placement at the proposed national repository. The total absorbed dose in these cases could be as high as 5 x 10(7) Gy (5 x 10(9) rads). This investigation evaluated the potential generation of explosive or combustible irradiation byproducts during this irradiation. It focuses on the production of radiolytic byproducts generated within the pore water of surrogate clays that are consistent with those found on the Idaho National Engineering and Environmental Laboratory. Synthesized surrogates of localized soils containing combinations of clay, water, and aluminum samples, enclosed within a stainless steel vessel were irradiated and the quantities of the byproducts generated measured. Two types of clays, varying primarily in the presence of iron oxide, were investigated. Two treatment levels of irradiation and a control were investigated. An 18-Mev linear accelerator was used to irradiate samples. The first irradiation level provided an absorbed dose of 3.9 x 10(5)+/-1.4 x 10(5)Gy (3.9 x 10(7)+/-1.4 x 10(7) rads) in a 3-h period. At the second irradiation level, 4.8 x 10(5)+/-2.0 x 10(5)Gy (4.8 x 10(7)+/-2.0 x 10(7) rads) were delivered in a 6-h period. When averaged over all treatment parameters, irradiated clay samples with and without iron (III) oxide (moisture content = 40%) had a production rate of hydrogen gas that was a strong function of radiation-dose. A g-value of 5.61 x 10(-9)+/-1.56 x 10(-9) mol/J (0.054+/-0.015 molecules/100-eV) per mass of pore water was observed in the clay samples without iron (III) oxide for hydrogen gas production. A g-value of 1.07 x 10(-8)+/-2.91 x 10(-9) mol/J (0.103+0.028 molecules/100-eV) per mass of pore water was observed in the iron (III) oxide containing clay samples for hydrogen gas production. This value was noticeably larger when the samples were spiked with both KCl and KNO3 salts. The ratio of oxygen to nitrogen gas was observed to increase as a function of absorbed dose particularly in the presence of both KCl and KNO3 salts. The creation of radiolytic byproducts produced an observable but small increase in headspace pressure. Temperature increases during irradiation were not observed. Additionally, KCl and KNO3 salts added to the clays enhanced nitrite production as a function of radiation-dose and the type of clay considered. The addition of aluminum to these samples had no statistically discernable impact at the alpha = 0.05 level. Generation of the irradiation products, hydrogen peroxide and hydrogen gas also depended upon the type of clay irradiated and the presence of both KCl and KNO3 salts and the total dose received.

Aluminum↗

The past and future of structure databases.

For many years the primary source of information about biological macromolecules was the Protein Data Bank, which is a repository of files containing coordinates of biological macromolecules. Now a variety of databases has been developed in which structures are organized in different ways. Currently available are databases that classify molecules according to their overall structural characteristics or particular features of structures, as well as databases that focus on particular protein families in depth.

Databases, Factual↗

Prostate cancer: natural history and surgical treatment of localised disease.

In summary, there is increasing and convincing evidence that radical prostatectomy is effective in locally confined, poorly differentiated prostate cancer. Diagnostic efforts, therefore, should be targeted toward this disease and probably also, based on the natural history evidence, toward moderately differentiated disease, mainly Gleason score 7. It is unclear, at present, how this can be achieved. Further improvement of our diagnostic capabilities is urgently needed. Hopefully ongoing randomised studies comparing radical prostatectomy to surveillance and studies comparing radical prostatectomy to radiotherapy are urgently desired. The randomised screening studies, which are ongoing, will provide important information with respect to the effect of treatment. If prostate cancer mortality in those men who are randomised to screening turns out to be better than in those randomised to control, this will also be an indication of the effectiveness of treatment. Also, the screening studies and associated natural history studies based on serum repositories and follow-up in non-screened patients will provide important information with respect to the natural history of prostate cancer in relation to PSA and changes of PSA over time. Finally, quality of life with and without treatment will have to be evaluated, in a prospective manner, in multicentre settings according to validated criteria such as those presented by Litwin. The outcomes of such studies will have to be added as utilities to data relating to traditional endpoints such as cancer-specific and overall survival. In the meantime, clinical practice will be determined by the fact that the only way to cure prostate cancer is early diagnosis and aggressive management. Encouragement comes from the increasing volume of evidence showing that poorly differentiated disease can be eradicated as long as it is locally confined.

Europe↗

Gamma radiation effects on potassium pertechnetate in carbonate media.

Gamma radiation effects on the stability of the oxidation state of radioelements and diffusion within the framework of nuclear waste repositories are often neglected, although it may influence physicochemical processes and thus transfer to biosphere and geosphere. This knowledge is essential to model transport phenomena. This study reports on effects of gamma irradiation on technetium in carbonate media, which is representative of natural systems. Depending on media compositions, the gamma irradiation on pertechnetate leads to formation of Tc(IV) only in the absence of carbonate. CO3*- radicals are able to re-oxidise technetium intermediate oxidation states to the +7 state.

Carbonates↗

The establishment of a radioactive waste disposal facility in Western Australia for low level waste.

The Radiation Health Section of the Health Department of Western Australia has been a repository for unwanted radioactive sources for many years. They had been placed in the radioactive store located on the Queen Elizabeth II Medical Centre Campus. After a collection period of more than 20 years the storage facilities of the Radiation Health Section were nearing capacity. A decision was made to relocate these sources into a permanent near surface burial facility. Following extensive community consultation and site investigations, waste originating in Western Australia was disposed of at Mt Walton (East), 80 km North East of Koolyanobbing, Western Australia in November 1992.

Environmental Monitoring↗

Risk factors and early detection of lung cancer in a cohort of Chinese tin miners.

PURPOSE: To examine risk factors and establish a biologic specimen and data bank for the study of early markers of lung cancer. METHODS: We designed a dynamic cohort using an ongoing lung cancer screening program among radon- and arsenic-exposed tin miners in Yunnan China. Through the first four years of the study, 8,346 miners aged 40 years and older with over 10 years of occupational exposure have been enrolled, risk factors have been assessed, annual sputum and chest radiographs have been obtained, and numerous biologic specimens have been collected. RESULTS: A total of 243 new lung cancer cases have been identified through 1995. Radon and arsenic exposures are the predominant risk factors, but lung cancer risk is also associated with chronic bronchitis and silicosis, as well as a number of exposure to tobacco smoke, including early age of first use, duration, and cumulative exposure. Tumor and sputum samples are being examined for early markers of lung cancer. CONCLUSION: A cohort of occupationally-exposed tin miners with an extensive biologic specimen repository has been successfully established to simultaneously study the etiology and early detection of lung cancer.

Adult↗

Biomarkers in Barrett's esophagus.

This article provides a framework for clinicians who are attempting the difficult task of interpreting the Barrett's biomarker literature with the goal of improving care for their patients. Although many articles. including more that 60 proposed biomarkers, have been published on this subject, only a few describe phase 3 and 4 studies that are of interest to the clinical gastroenterologist (Table 1). For year, dysplasia grade has been the sole means of risk stratification for patients with BE, and it likely will continue to be used in the foreseeable future. The current authors believe that dysplasia classification can be valuable using the team management approach and quality controls described previously. Significant problems, however, have emerged in phase 2 through 4 studies of dysplasia that make it imperative for the Barrett's field to incorporate additional biomarkers as they are validated. These problems include poor reproducibility of dysplasia interpretations, poor predictive value for negative, indefinite, and low-grade dysplasia, and inconsistent results for HGD in different centers, all of which makes it virtually impossible to develop national guidelines for surveillance. Some studies have even suggested that endoscopic biopsy surveillance using dysplasia may not be worthwhile. Currently, flow cytometric tetraploidy and aneuploidy have progressed furthest in biomarker validation (see Table 1). With proper handling, endoscopic biopsy specimens can be shipped to reference laboratories that have the instruments, computer analytic methods, and expertise to reproducibly detect tetraploidy and aneuploidy. The results of phase 4 studies indicate that flow cytometry appears to be useful in detecting a subset of patients who do not have HGD and yet have an increased risk of progression to cancer that cannot be identified by dysplasia grade. For many reasons, the authors anticipate that the number of validated biomarkers will increase substantially in the future. Biopsy repositories are now readily available for phase 3 studies that can evaluate and compare biomarkers. There are initiatives for multi-institutional Barrett's Centers of Excellence that could provide rapid progress in biomarker evaluation. In addition to new candidate biomarkers, the human genome project has provided high-throughput methodologies and methods for computer analysis of data, which can provide the volume and quality control required for clinically useful biomarkers. Currently, 17p (p53) LOH has progressed the furthest among molecular biomarkers. The authors do not recommend its routine clinical use at the present time, however. Finally, it is likely that clinicians will want to follow the results of clinical treatment-response studies and epidemiologic studies that evaluate relationship between clinical interventions or environmental risk and protective factors and surrogate endpoints, especially if the endpoints are progessing well along the phases of biomarker validation. These studies are likely to be of clinical interest because they may becoming the basis for randomized clinical trials to prevent cancer in BE.

Adenocarcinoma↗