XML for Domain Viewpoints

Within research institutions like CERN (European Organization for Nuclear Research) there are often disparate databases (different in format, type and structure) that users need to access in a domain-specific manner. Users may want to access a simple unit of information without having to understand detail of the underlying schema or they may want to access the same information from several different sources. It is neither desirable nor feasible to require users to have knowledge of these schemas. Instead it would be advantageous if a user could query these sources using his or her own domain models and abstractions of the data. This paper describes the basis of an XML (eXtended Markup Language) framework that provides this functionality and is currently being developed at CERN. The goal of the first prototype was to explore the possibilities of XML for data integration and model management. It shows how XML can be used to integrate data sources. The framework is not only applicable to CERN data sources but other environments too.Comment: 9 pages, 6 figures, conference report from SCI'2001 Multiconference on Systemics & Informatics, Florid

Grid Databases for Shared Image Analysis in the MammoGrid Project

The MammoGrid project aims to prove that Grid infrastructures can be used for collaborative clinical analysis of database-resident but geographically distributed medical images. This requires: a) the provision of a clinician-facing front-end workstation and b) the ability to service real-world clinician queries across a distributed and federated database. The MammoGrid project will prove the viability of the Grid by harnessing its power to enable radiologists from geographically dispersed hospitals to share standardized mammograms, to compare diagnoses (with and without computer aided detection of tumours) and to perform sophisticated epidemiological studies across national boundaries. This paper outlines the approach taken in MammoGrid to seamlessly connect radiologist workstations across a Grid using an "information infrastructure" and a DICOM-compliant object model residing in multiple distributed data stores in Italy and the UKComment: 10 pages, 5 figure

Allergic Gingivostomatitis (Due to Gum Chewing)

Peer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/141962/1/jper0709.pd

Experiences of Engineering Grid-Based Medical Software

Objectives: Grid-based technologies are emerging as potential solutions for managing and collaborating distributed resources in the biomedical domain. Few examples exist, however, of successful implementations of Grid-enabled medical systems and even fewer have been deployed for evaluation in practice. The objective of this paper is to evaluate the use in clinical practice of a Grid-based imaging prototype and to establish directions for engineering future medical Grid developments and their subsequent deployment. Method: The MammoGrid project has deployed a prototype system for clinicians using the Grid as its information infrastructure. To assist in the specification of the system requirements (and for the first time in healthgrid applications), use-case modelling has been carried out in close collaboration with clinicians and radiologists who had no prior experience of this modelling technique. A critical qualitative and, where possible, quantitative analysis of the MammoGrid prototype is presented leading to a set of recommendations from the delivery of the first deployed Grid-based medical imaging application. Results: We report critically on the application of software engineering techniques in the specification and implementation of the MammoGrid project and show that use-case modelling is a suitable vehicle for representing medical requirements and for communicating effectively with the clinical community. This paper also discusses the practical advantages and limitations of applying the Grid to real-life clinical applications and presents the consequent lessons learned.Comment: 18 pages, 2 tables, 5 figures. In press International Journal of Medical Informatics. Elsevier publisher

The Spectral Dimension of Arctic Outgoing Longwave Radiation and Greenhouse Efficiency Trends From 2003 to 2016

Fourteen years of spectral fluxes derived from collocated Atmospheric Infrared Sounder (AIRS) and Clouds and the Earth’s Radiant Energy System (CERES) observations are used in conjunction with AIRS retrievals to examine the trends of zonal mean spectral outgoing longwave radiation (OLR) and greenhouse efficiency (GHE) in the Arctic. AIRS retrieved profiles are fed into a radiative transfer model to generate synthetic clear‐sky spectral OLR. Trends are derived from the simulated clear‐sky spectral OLR and GHE and then compared with their counterparts derived from collocated observations. Spectral trends in different seasons are distinctively different. March and September exhibit positive trends in spectral OLR over the far‐IR dirty window and mid‐IR window region for most of the Arctic. In contrast, spectral OLR trends in July are negative over the far‐IR dirty window and can be positive or negative in the mid‐IR window depending on the latitude. Sensitivity studies reveal that surface temperature contributes much more than atmospheric temperature and humidity to the spectral OLR and GHE trends, while the contributions from the latter two are also discernible over many spectral regions (e.g., trends in the far‐IR dirty window in March). The largest increase of spectral GHE is seen north of 80°N in March across the water vapor v2 band and far‐IR. When the secular fractional change of spectral OLR is less than that of surface spectral emission, an increase of spectral GHE can be expected. Spectral trend analyses reveal more information than broadband trend analyses alone.Key PointsObserved Arctic zonal mean trends of spectral flux and greenhouse efficiency are studied for the first timeSpectral trends are seasonally dependent and reveal more information than broadband trendsChanges in surface temperature contribute the most to overall spectral trends, but changes due to air temperature and humidity trends are discerniblePeer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/151304/1/jgrd55648_am.pdfhttps://deepblue.lib.umich.edu/bitstream/2027.42/151304/2/jgrd55648.pd

Mucoepidermoid carcinoma associated with acute lymphoblastic leukemia

As treatment and survival of acute leukemia as well as other types of pediatric cancer improve, the number of second malignancies in these treated patients will increase. Occurrence of these second malignancies in the head and neck is not frequently reported although it is known that radiation treatment, chemotherapy and sometimes the primary lesion itself are risk factors for neoplasia. Malignancies of the parotid gland in the pediatric population are known to be unusual. We discuss a mucoepidermoid carcinoma in a 10-year-old female who 7 years earlier had undergone successful treatment of acute lymphoblastic leukemia.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/30289/1/0000691.pd

Carbon Black Exposure Induces Alterations in Mitochondrial Morphology in Human Lung Cells: A Software-Based Quantitative Analysis

Nanoparticulates of pure carbon, carbon black (CB), are a common atmospheric pollutant in industrialized and heavily populated areas. They are produced primarily via combustion of fossil fuels, and represent a significant health hazard. They are known to worsen asthma and bronchitis when inhaled and to cause inflammation, heart dysfunction, and oxidative stress when incorporated into other organs. The key focal point of this work was to examine markers of stress signaling and cellular dysfunction when human bronchial epithelial cells (16HBE14o-) were exposed to CB particles ranging in size from 70 nm and averaging 130 nm in diameter. BrdU incorporation and DAPI staining studies revealed a 24-hour CB exposure (25 ug/ml and higher) to reduce rates of cell division and to significantly elevate percentages of cells exhibiting apoptotic nuclear morphology. Chronic exposure (24 days) of cells to low doses of CB (5 ug/ml) revealed a significant impact upon both cell division and survival. A central marker for stress signaling in these lung cells was elevation of reactive oxygen species, which rose within 12 hours of CB exposure, consistent with stress signals that induce mitochondrial apoptosis. Sirtuin 1, a stress regulated protein deacetylase in the cytosol, whose levels are known to be destabilized by ROS elevation in stressed cells, displayed no significant change following CB exposure at varied doses. Analysis of mitochondrial dynamics via fluorescence microscopy revealed clear changes in organization and morphology. HBE cells were treated with varying doses of CB, fixed, and analyzed via immunocytochemistry. Mitochondria were labelled using a Tom20 antibody conjugate (Alexa488), while microtubules were assessed with phalloidin (Alexa594). Using software developed in MatLab, mitochondria were analyzed for changes in mitochondrial size and localization. Significant changes were identified with regard to an increase in mitochondrial size, and strong trends were observed in an increased localization preference for the perinuclear region. A discussion of the link between elevated ROS levels and mitochondrial behavior will be discussed