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PubMed2005

Systems for the management of pharmacogenomic information.

Recent breakthroughs in biological research have been made possible by remarkable advances in high-performance computing and the establishment of a highly sophisticated information technology infrastructure. This chapter gives an overview of the main and most important technologies needed for the management of pharmacogenomic information, namely database management systems and software and hardware architectures. Because pharmacogenomics deals with a great many of public and/or proprietary data, the most prominent ways for easy storage, retrieval, analysis, and exchange are presented. Processing these data requires the use of sophisticated software architectures. Several most recent practices useful for a pharmacogenomic environment are explained. Multitiered application design and web services are discussed and described independent of the major enterprise development platforms. Because life sciences are becoming increasingly quantitative and because state-of-the-art software architectures use many system resources, this chapter presents the most recent and powerful systems for parallel data processing and data storage. Finally, shared and distributed memory systems and combinations of them as well as different storage architectures such as directly attached storage, network-attached storage, and storage-area network are explained in detail.

Animals↗

PubMed2002

Designing and implementing special-purpose databases: lessons from the pharmacogenetic network.

The Pharmacogenetics Research Network, which has the long-term goal of genotype-phenotype correlation related to pharmacotherapy, mandates timely electronic publication of results by participating research groups through submission to PharmGKB, the consortium's repository database. Because informatics expertise across groups varies, many groups need help in managing their own data and in generating electronic submissions. To assist these operations, we perform a needs assessment to determine an optimum database implementation strategy, which varies from standalone microcomputer database application to Web-based solutions, depending on the group and problem scope. Solution implementation is coupled with transfer of expertise through hands-on training, so as to reduce the groups' long-term dependence on us. Where multiple groups face common problems, such as managing genotyping data or clinical study support, we have devised generic software that can be reused in its entirety by individual groups, or customized with modest effort.

Computer Communication Networks↗

PubMed2006

Web-mediated interspecific competition among spider mites.

Some spider mites, such as Tetranychus spp. and Amphitetranychus spp., create complicated webs (CWs), whereas others, such as Panonychus spp., produce little webs (LWs). We verified whether interspecific competition occurred between CW and LW mites via habitat arrangement under laboratory conditions. The complicated webs produced by CW mites clearly inhibited juvenile development in LW mites, whereas there was no effect of LW mites on CW mites. In oviposition site choice tests, both CW and LW females preferred the lower surface of leaves to the upper surface. The preference of LW mites for the lower leaf surface, even in the presence of CW mite webs, suggests that the costs of amensalism are outweighed by the possible benefits, such as avoiding rain. These findings show that the shift in mite species composition from LW to CW mites can occur as a consequence of the interspecific association between spider mites via their webs, without pesticide applications or the presence of natural enemies.

Animals↗

PubMed2005

A web-based program for coding open-ended response protocols.

A Web-based coding application was designed to improve coding efficiency and to provide a systematic means of evaluating responses to open-ended assessments. The system was developed for use by multiple raters to assign open-ended responses to predetermined categories. The application provides a software environment for efficiently supervising the work of coders and evaluating the quality of the coding by (1) systematically presenting open-ended responses to coders, (2) tracking each coder's categorized responses, and (3) assessing interrater consistency at any time in order to identify coders in need of further training. In addition, the application can be set to automatically assign repeated responses to categories previously identified as appropriate for those responses. To evaluate the efficacy of the coding application and to determine the statistical reliability of coding open-ended data within this application, we examined data from two empirical studies. The results demonstrated substantial interrater agreement on items assigned to various categories across free and controlled association tasks. Overall, this new coding application provides a feasible method of reliably coding open-ended data and makes the task of coding these data more manageable.

Adolescent↗

PubMed2003

Uzilla: a new tool for web usability testing.

Web usability testing and research presents challenges for accurate data collection. An instrumented browser solution, Uzilla, is compared with existing solutions, and its contributions to usability testing practice are noted. Uzilla implements a client-server architecture based on the open source Mozilla browser. Instrumentation of the browser facilitates the evaluation of Web sites and applications inside and outside of the laboratory. An integrated data collection and analysis server application decreases the effort required to understand test results and facilitates iterative testing.

Ergonomics↗

PubMed1996

Remote access to neurosurgical ICU physiological data using the World Wide Web.

There is a significant demand by physicians and clinical researchers for remote access to continuously acquired physiological patient data. Until recently such access was technically unfeasible. However, with the recent development of Internet-based World Wide Web (WWW) client/server applications and underlying communication protocols, there is now a real possibility for the development of cost-effective, platform independent solutions to this problem. We have devised a way using existing WWW tools and minimal startup costs to provide access to current as well as previously acquired physiological patient data. Physicians and clinical researchers can obtain access to these data through personal computers located in the office, at home or even through portable computers while traveling to conferences or while on vacation.

Computer Communication Networks↗

PubMed1999

Limitations of distributed segmentation for three-dimensional radiological modeling.

While the use of three-dimensional models has been shown to be useful clinically, the specialized computational equipment and expertise necessary for their construction and use keeps these tools out of reach of most physicians. This paper explores the construction of a Web-based Java application that allows medical radiological models to be built on a remote server and navigated locally on the physician's desktop PC. This paper will also address issues that arose from a public, unrestricted testing of usability over the Internet, such as model size management, easy navigation, processor loading and security. Based on observations and data collected, we suggest what steps are necessary to make a telemedicine application useable in a true clinical setting.

Humans↗

PubMedDate not supplied

Direct seal papers for horizontal form-fill-seal machine.

Direct-seal papers are designed for minimal fibre lift, where the sealing layer is incorporated into the bottom web. There are applications where they are the most appropriate economical alternative to traditional coated papers for horizontal form-fill-seal packaging. This article explores their benefits and limitations.

Cost Control↗

PubMed2003

Tracing technology in the Association of Academic Health Sciences Libraries.

From the beginning of the association, technology and the Association of Academic Health Sciences Libraries (AAHSL) have been intertwined. Technology was the focus of one of the first committees. Innovative applications of technology have been employed in the operations of the association. Early applications of mini-computers were used in preparing the Annual Statistics. The association's use of network communications was among the first in the country and later applications of the Web have enhanced association services. For its members, technology has transformed libraries. The association's support of the early development of Integrated Advanced Information Management Systems (IAIMS) and of its recent reconceptualization has contributed to the intellectual foundation for this revolution.

Cooperative Behavior↗

PubMed2002

Secure exchange of medical data: requirements and solutions.

It is now common to access and to exchange data through computer networks. The major applications used are Web access and, e-mail. But while there is no security concern when accessing classical or anonymous data, the exchange of sensitive data (e.g. patient-related information) is subject to legal constraints. This paper summarizes the current legal obligations in Switzerland and presents state of the art techniques for applying the legal rules. A commercial implementation in Switzerland is taken as illustration.

Computer Security↗

PubMed2005

How students and faculty interact with a searchable online database of the medical curriculum.

Many medical schools currently provide electronic access to their medical curriculum. In order to better develop and evaluate online curricular databases, knowledge of the interaction of students and faculty with such systems is required. The KnowledeMap application provides a web interface for students, faculty and administrators to perform NLP-assisted searches for documents from the entire medical curriculum. The pilot implementation of KM in a first year anatomy course was evaluated. Data was collected from the web-server log files over two years, a paper survey at the end of the course, and structured interviews with students and faculty members. The data showed complete adoption of KM. Analysis of usage patterns showed that most of the students chose to browse for current course material rather than to search for related medical concepts in future courses. Analysis of the interviews identified key concepts relating to the students' utilization of KM for their learning tasks. The impact of KM on medical pedagogy is discussed in light of our results.

Anatomy↗

PubMed1996

A Web-based architecture for the intelligent management of chronic patients.

We describe a distributed architecture for medical informatics applications, based on the World-Wide Web (WWW) environment. After discussing previous experiences in the application of the WWW for medical purposes, we outline the features of a Common Lisp HTTP server designed to provide access to medical informatics applications using a standard Web browser. As an example of application, we describe a system for therapy planning and revision in the field of insulin-dependent diabetes. The system performs automatic data analysis and interpretation and provides advice on possible adjustments to the therapeutic protocol that the patients are following, taking advantage of the network and multimedia capabilities offered by the WWW for user interaction.

Chronic Disease↗

PubMed2006

Application of mitomycin C after endoscopic lysis of congenital laryngeal web combined with epiglottic hypoplasia in a middle-aged man.

Laryngeal webs and epiglottic hypoplasias are uncommon congenital anomalies. Anterior glottic web combined with epiglottic hypoplasia was found in a middle-aged man presenting with hoarseness and dyspnea on exertion. This can be considered as a unique isolated defect of the larynx during early fetal development. The laryngeal web can be successfully treated in a single stage with endoscopic lysis and topical application of mitomycin C for prevention of anterior glottic restenosis. This case and prior reports suggest that the novel approach may be effective in the treatment of laryngeal webs.

Antibiotics, Antineoplastic↗

PubMed2005

The impact of visual layout factors on performance in Web pages: a cross-language study.

Visual layout has a strong impact on performance and is a critical factor in the design of graphical user interfaces (GUIs) and Web pages. Many design guidelines employed in Web page design were inherited from human performance literature and GUI design studies and practices. However, few studies have investigated the more specific patterns of performance with Web pages that may reflect some differences between Web page and GUI design. We investigated interactions among four visual layout factors in Web page design (quantity of links, alignment, grouping indications, and density) in two experiments: one with pages in Hebrew, entailing right-to-left reading, and the other with English pages, entailing left-to-right reading. Some performance patterns (measured by search times and eye movements) were similar between languages. Performance was particularly poor in pages with many links and variable densities, but it improved with the presence of uniform density. Alignment was not shown to be a performance-enhancing factor. The findings are discussed in terms of the similarities and differences in the impact of layout factors between GUIs and Web pages. Actual or potential applications of this research include specific guidelines for Web page design.

Attitude to Computers↗

PubMed1996

A Web-based repository manager for brain mapping data.

The Web provides a rapid prototyping environment for building platform-independent graphical user interfaces. A Web-based console can be implemented as a suite of CGI scripts that generate HTML code, manipulate files, execute system commands, and invoke external tools. Often these tools share data by reading and writing flat files, which must be explicitly maintained by the CGI programmer. In a repository system, meta-data about each file object are maintained in a database, and access to all data is regulated by a layer of control services. This paper describes the design and implementation of a Web-based Repository Manager (WRM), which provides an application programmer's interface for controlling applications, generating HTML documents, handling Web forms, and managing multi-media data. The WRM is being used to develop a console for the Brain Mapping Framework, a system for visualizing cortical stimulation data obtained during neurosurgery.

Brain Mapping↗

PubMed1996

Implementing a distributed intranet-based information system.

The article discusses Internet and intranet technologies and describes how to install an intranet-based information system using the Merle language facility and other readily available components. Merle is a script language designed to support decentralized medical record information retrieval applications on the World Wide Web. The goal of this work is to provide a script language tool to facilitate construction of efficient, fully functional, multipoint medical record information systems that can be accessed anywhere by low-cost Web browsers to search, retrieve, and analyze patient information. The language allows legacy MUMPS applications to function in a Web environment and to make use of the Web graphical, sound, and video presentation services. It also permits downloading of script applets for execution on client browsers, and it can be used in standalone mode with the Unix, Windows 95, Windows NT, and OS/2 operating systems.

Computer Communication Networks↗

PubMed2000

Architecture of an image capable, Web-based, electronic medical record.

With each medical center department creating and maintaining its own patient care-related data, nursing and house staff may find it confusing to log into all the information systems necessary to achieve a global perspective of the patient's state. The Medical Information Network Database application provides a logically centralized Worldwide Web viewing application for the physically distributed data. In addition to coordinating data displays for histories, laboratories, pathology, radiology, and discharge summaries, the application can be configured to apply rule sets to the data and remind caregivers of follow-up tests or of possible reactions to treatment protocols. The viewing client runs on any HTML 2.0-compliant browser, although certain applet enhancements (notably for viewing radiological images) require a browser with Java abilities. With this "thin client" approach, the application can be configured to coexist with other applications (such as a PACS viewer), thus centralizing information and reducing the overall number of computers in the medical center.

Computer Systems↗

PubMed2000

Effective use of the web to expand a summer predoctoral program: the St. Jude experience.

BACKGROUND: Since 1978, the St. Jude Children's Research Hospital has oncology education (POE) program for medical and other health professional students to do two-to-four-month clinical and/or basic research rotations in pediatric oncology. Limitations in funding, recruitment capability, and faculty interest held student numbers to 0-18 per year. METHODS: In early 1997, the program announcement and an on-line application were put on the Web site, . An applicant's online submission is delivered immediately to the program director's e-mail inbox, promptly acknowledged via e-mail, transferred to a digital database, and forwarded electronically to prospective institutional preceptors. RESULTS: The program accepted 36 of 61 applicants (56% minority) in 1997. A supplemental funding award enabled expansion of the program to include students preparing for health professions or biomedical sciences careers. In 1999, 75 of 139 applicants were accepted (47% minority) from 39 schools in 18 states, the District of Columbia, Puerto Rico, Mexico, and Ireland. CONCLUSIONS: Effective use of the Web and e-mail made it possible to inform students effectively about the institution and program, match students with preceptors, increase the number of minority participants, and expand the regional program into a national one.

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