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Informatics in Radiology (infoRAD): radiology report entry with automatic phrase completion driven by language modeling.

Keyboard entry or correction of radiology reports by radiologists and transcriptionists remains necessary in many settings despite advances in computerized speech recognition. A report entry system that implements an automated phrase completion feature based on language modeling was developed and tested. The special text editor uses context to predict the full word or phrase being typed, updating the displayed prediction after each keystroke. At any point, pressing the tab key inserts the predicted phrase without having to type the remaining characters of the phrase. Successive words of the phrase are predicted by a trigram language model. Phrase lengths are chosen to minimize the expected number of keystrokes as predicted by the language model. Operation is highly and automatically customized to each user. The language model was trained on 36,843 general radiography reports, which were consecutively generated and contained 1.48 million words. Performance was tested on 200 randomly selected reports outside of the training set. The phrase completion technique reduced the average number of keystrokes per report from 194 to 58; the average reduction factor was 3.3 (geometric mean) (95% confidence interval, 3.2-3.5). The algorithm significantly reduced the number of keystrokes required to generate a radiography report (P <.00005).

Algorithms↗
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Informatics in Radiology (infoRAD): personal computer security: part 2. Software Configuration and file protection.

Proper configuration of software security settings and proper file management are necessary and important elements of safe computer use. Unfortunately, the configuration of software security options is often not user friendly. Safe file management requires the use of several utilities, most of which are already installed on the computer or available as freeware. Among these file operations are setting passwords, defragmentation, deletion, wiping, removal of personal information, and encryption. For example, Digital Imaging and Communications in Medicine medical images need to be anonymized, or "scrubbed," to remove patient identifying information in the header section prior to their use in a public educational or research environment. The choices made with respect to computer security may affect the convenience of the computing process. Ultimately, the degree of inconvenience accepted will depend on the sensitivity of the files and communications to be protected and the tolerance of the user.

Computer Security↗
PubMedDate not supplied

Informatics in radiology (infoRAD): free DICOM image viewing and processing software for the Macintosh computer: what's available and what it can do for you.

It is often necessary for radiologists to use digital images in presentations and conferences. Most imaging modalities produce images in the Digital Imaging and Communications in Medicine (DICOM) format. The image files tend to be large and thus cannot be directly imported into most presentation software, such as Microsoft PowerPoint; the large files also consume storage space. There are many free programs that allow viewing and processing of these files on a personal computer, including conversion to more common file formats such as the Joint Photographic Experts Group (JPEG) format. Free DICOM image viewing and processing software for computers running on the Microsoft Windows operating system has already been evaluated. However, many people use the Macintosh (Apple Computer) platform, and a number of programs are available for these users. The World Wide Web was searched for free DICOM image viewing or processing software that was designed for the Macintosh platform or is written in Java and is therefore platform independent. The features of these programs and their usability were evaluated. There are many free programs for the Macintosh platform that enable viewing and processing of DICOM images.

Microcomputers↗
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Informatics in Radiology (infoRAD): three-dimensional atlas of the brain anatomy and vasculature.

Of the existing atlases of the brain anatomy and cerebrovasculature, none integrates the anatomy and vasculature by providing for direct manipulation of three-dimensional (3D) cerebral models. An atlas-based application was developed in four steps: (a) construction of 3D anatomic models, (b) construction of 3D vascular models, (c) interactive spatial coregistration of the anatomic and vascular models, and (d) development of functionality and a user interface for the application. Three-dimensional anatomic models were imported from an electronic brain atlas database derived from classic print atlases. A novel vascular modeling technique was developed and applied to create a vascular atlas from magnetic resonance angiographic data. The use of 3D polygonal models allows smooth navigation (rotation, zooming, panning) and interactive labeling of anatomic structures and vascular segments. This application enables the user to examine 3D anatomic structures and 3D cerebral vasculature and to gain a better understanding of the relationships between the two. The combined anatomic-vascular atlas is a user-friendly neuroeducational tool that is useful for medical students and neuroscience researchers as well as for educators in preparing teaching materials.

Brain↗
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Informatics in Radiology (infoRAD): album of radiologic signs: a useful tool for training in radiologic semiology.

The importance of radiologic semiology can be seen from the large number of articles, books, and Web pages dealing with radiologic signs. Recognition of these signs forms an important part of the training process for radiologists. Computer-assisted instruction complements traditional techniques for teaching radiology and provides an appropriate method of collecting, organizing, and presenting radiologic signs. A computer application that includes more than 350 radiologic signs has been created with Microsoft PowerPoint (version 2002 for Windows). The user can navigate freely to see the signs from a menu that provides access according to anatomic region or from an interactive dictionary that includes 779 terms. From the presentation of each sign, the user can access one or more representative images, information about the examination wherein the sign appears, an explanation of the meaning of the sign and the corresponding diagnosis, additional comparative images (pathologic or normal), and relevant references. This album of radiologic signs is a useful tool for training in radiologic semiology and also allows a quick consultation based on the name of the sign. Although designed for interns and residents, it will also be useful in pregraduate teaching of radiology, as a reference, and in continuing medical education.

Databases, Factual↗
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Informatics in Radiology (infoRAD): mobile wireless DICOM server system and PDA with high-resolution display: feasibility of group work for radiologists.

A novel mobile system has been developed for use by radiologists in managing Digital Imaging and Communications in Medicine (DICOM) image data. The system consists of a mobile DICOM server (MDS) and personal digital assistants (PDAs), including a Linux PDA with a video graphics array (VGA) display (307,200 pixels, 3.7 inches). The MDS weighs 410 g, has a 60-GB hard disk drive and a built-in wireless local area network (LAN) access point, and supports a DICOM server (Central Test Node). The Linux-based MDS can be accessed with personal computers (PCs) and PDAs by means of a wireless or wired LAN, and client-server communications can be established at any time. DICOM images can be displayed by using any PDA or PC by means of a Web browser. Simultaneous access to the MDS is possible for multiple authenticated users. With most PDAs, image compression is necessary for complete display of DICOM images; however, the VGA screen can display a 512 x 512-pixel DICOM image almost in its entirety. This wireless system allows efficient management of heavy loads of lossless DICOM image data and will be useful for collaborative work by radiologists in education, conferences, and research.

Computers, Handheld↗
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Informatics in radiology (infoRAD): integrating MIRC-compliant semiautomated teaching files into PACS work flow.

A Medical Image Resource Center (MIRC)-compliant teaching file system was created that can be integrated into a picture archiving and communication system (PACS) environment. This system models the three-step process necessary for efficient teaching file creation in a PACS environment: (a) identifying and transferring a case quickly and easily during primary interpretation, (b) editing and authoring the case outside of primary interpretation time, and (c) publishing the case locally and via MIRC standard-based mechanisms. Images from interesting cases are e-mailed to the teaching file system from either the PACS workstation or the radiologist's personal computer. Notes and clinical information may be included in the e-mail text to prompt the recollection of case details. Images are automatically extracted from the e-mail and sent to an image repository, and text fields are captured in a database. The World Wide Web-based authoring component provides tools for final authoring of cases and for the manipulation of existing cases. Authors designate access levels for each case, which is then made available locally and, potentially, to the entire MIRC-compliant community. Although this application has not yet been implemented as a departmental solution, it promises to improve and streamline medical education and promote better patient care.

Radiology↗
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Informatics in radiology (infoRAD): new tools for computer assistance in thoracic CT. Part 1. Functional analysis of lungs, lung lobes, and bronchopulmonary segments.

Owing to the rapid development of scanner technology, thoracic computed tomography (CT) offers new possibilities but also faces enormous challenges with respect to the quality of computer-assisted diagnosis and therapy planning. In the framework of the Virtual Institute for Computer Assistance in Clinical Radiology cooperative research project, a prototypical software application was developed to assist the radiologist in functional analysis of thoracic CT data. By identifying the anatomic compartments of the lungs, the software application enables assessment of established functional CT parameters for each individual lung, pulmonary lobe, and pulmonary segment. Such region-based assessment allows a more localized diagnosis of lung diseases such as emphysema and more accurate estimation of regional lung function from CT data. With close cooperation between computer scientists and radiologists, the software application was tested and optimized to achieve a high degree of usability. Several clinical studies were carried out, the results of which indicated that the software application improves quantification in diagnosis, therapy planning, and therapy monitoring with respect to accuracy and time required.

Algorithms↗
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Informatics in radiology (infoRAD): survey of personal digital assistant use in radiology.

There has been widespread adoption of personal digital assistants (PDAs) within medicine in recent years. However, information on the prevalence and usage of these devices among radiologists is limited. A survey was designed and mailed to randomly selected members of the Radiological Society of North America to determine the percentage of PDA users, their use patterns, and the types of applications that they would like to see in the future. The use patterns of attending radiologists were compared with those of trainees (residents and fellows). Overall usage was also compared with the relevant findings in two surveys of internal medicine users. It was found that slightly less than one-half of respondents used PDAs on a daily basis, a finding that was comparable to that in the internal medicine surveys. However, less than one-quarter of PDA users had radiology-specific applications installed on their devices, whereas a greater percentage of internal medicine users had software such as drug databases and clinical references on their PDAs. Radiology trainees had a higher rate of both PDA ownership and radiology application usage than did attending radiologists. It is likely that, as PDA hardware becomes more powerful, with higher display resolution, better wireless networking capabilities, and greater memory capacity, PDA ownership as well as radiology application usage will increase.

Computers, Handheld↗
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Informatics in radiology (infoRAD): benefits of content-based visual data access in radiology.

The field of medicine is often cited as an area for which content-based visual retrieval holds considerable promise. To date, very few visual image retrieval systems have been used in clinical practice; the first applications of image retrieval systems in medicine are currently being developed to complement conventional text-based searches. An image retrieval system was developed and integrated into a radiology teaching file system, and the performance of the retrieval system was evaluated, with use of query topics that represent the teaching database well, against a standard of reference generated by a radiologist. The results of this evaluation indicate that content-based image retrieval has the potential to become an important technology for the field of radiology, not only in research, but in teaching and diagnostics as well. However, acceptance of this technology in the clinical domain will require identification and implementation of clinical applications that use content-based access mechanisms, necessitating close cooperation between medical practitioners and medical computer scientists. Nevertheless, content-based image retrieval has the potential to become an important technology for radiology practice.

Humans↗
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Informatics in radiology (infoRAD): new tools for computer assistance in thoracic CT part 2. Therapy monitoring of pulmonary metastases.

Owing to the rapid development of scanner technology, thoracic computed tomography (CT) offers new possibilities but also faces enormous challenges with respect to the quality of computer-assisted diagnosis and therapy planning. In the framework of the Virtual Institute for Computer Assistance in Clinical Radiology cooperative research project, a software application was developed to assist the radiologist in the analysis of thoracic CT data for the purpose of evaluating the response to tumor therapy. The application provides follow-up support for monitoring of tumor therapy by means of volumetric quantification of tumors and temporal registration. In addition, anatomically adequate three-dimensional visualization techniques for convenient examination of large data sets are included. With close cooperation between computer scientists and radiologists, the application was tested and optimized to achieve a high degree of usability. Several clinical studies were carried out, the results of which indicated that the application improves therapy monitoring with respect to accuracy and time required.

Algorithms↗
PubMedDate not supplied

Informatics in radiology (infoRAD): HTML and Web site design for the radiologist: a primer.

A Web site has enormous potential as a medium for the radiologist to store, present, and share information in the form of text, images, and video clips. With a modest amount of tutoring and effort, designing a site can be as painless as preparing a Microsoft PowerPoint presentation. The site can then be used as a hub for the development of further offshoots (eg, Web-based tutorials, storage for a teaching library, publication of information about one's practice, and information gathering from a wide variety of sources). By learning the basics of hypertext markup language (HTML), the reader will be able to produce a simple and effective Web page that permits display of text, images, and multimedia files. The process of constructing a Web page can be divided into five steps: (a) creating a basic template with formatted text, (b) adding color, (c) importing images and multimedia files, (d) creating hyperlinks, and (e) uploading one's page to the Internet. This Web page may be used as the basis for a Web-based tutorial comprising text documents and image files already in one's possession. Finally, there are many commercially available packages for Web page design that require no knowledge of HTML.

Hypermedia↗
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Informatics in radiology (infoRAD): introduction to the language of three-dimensional imaging with multidetector CT.

The recent proliferation of multi-detector row computed tomography (CT) has led to an increase in the creation and interpretation of images in planes other than the traditional axial plane. Powerful three-dimensional (3D) applications improve the utility of detailed CT data but also create confusion among radiologists, technologists, and referring clinicians when trying to describe a particular method or type of image. Designing examination protocols that optimize data quality and radiation dose to the patient requires familiarity with the concepts of beam collimation and section collimation as they apply to multi-detector row CT. A basic understanding of the time-limited nature of projection data and the need for thin-section axial reconstruction for 3D applications is necessary to use the available data effectively in clinical practice. The axial reconstruction data can be used to create nonaxial two-dimensional images by means of multiplanar reformation. Multiplanar images can be thickened into slabs with projectional techniques such as average, maximum, and minimum intensity projection; ray sum; and volume rendering. By assigning a full spectrum of opacity values and applying color to the tissue classification system, volume rendering provides a robust and versatile data set for advanced imaging applications.

Imaging, Three-Dimensional↗
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Informatics in radiology (infoRAD): multimedia extension of medical imaging resource center teaching files.

A new method has been developed for multimedia enhancement of electronic teaching files created by using the standard protocols and formats offered by the Medical Imaging Resource Center (MIRC) project of the Radiological Society of North America. The typical MIRC electronic teaching file consists of static pages only; with the new method, audio and visual content may be added to the MIRC electronic teaching file so that the entire image interpretation process can be recorded for teaching purposes. With an efficient system for encoding the audiovisual record of on-screen manipulation of radiologic images, the multimedia teaching files generated are small enough to be transmitted via the Internet with acceptable resolution. Students may respond with the addition of new audio and visual content and thereby participate in a discussion about a particular case. MIRC electronic teaching files with multimedia enhancement have the potential to augment the effectiveness of diagnostic radiology teaching.

Multimedia↗
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Informatics in radiology (infoRAD): an open source framework for modification and communication of DICOM objects.

A configurable framework has been developed that can receive, modify, and export images in different picture archiving and communication system scenarios. The framework has three main components: a receiver for Digital Imaging and Communications in Medicine (DICOM) objects, a processing pipeline to apply one or more modifications to these objects, and one or more senders to send the processed objects to predefined addresses. The toolbox programming was implemented as an open source project in Java. The processing pipeline uses the concept of configurable plug-ins. One plug-in is user programmable by means of extensible stylesheet language files and allows conversion of DICOM objects to extensible markup language documents or other file types. Input and output channels are the DICOM Storage service, DICOM compact disks-read-only memory (CD-ROMs), and the local file system. The toolbox has been successfully applied to different clinical scenarios, including the correction of DICOM objects from non-Integrating the Healthcare Enterprise (IHE) conform modalities, pseudonaming of DICOM images, and use of the IHE Portable Data for Imaging profile with import and export of CD-ROMs. The toolbox has proved reliability in the clinical routine. Because of the open programming interfaces, the functionality can easily be adapted to future applications.

Computer Communication Networks↗
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Informatics in radiology (infoRAD): navigating the fifth dimension: innovative interface for multidimensional multimodality image navigation.

The display and interpretation of images obtained by combining three-dimensional data acquired with two different modalities (eg, positron emission tomography and computed tomography) in the same subject require complex software tools that allow the user to adjust the image parameters. With the current fast imaging systems, it is possible to acquire dynamic images of the beating heart, which add a fourth dimension of visual information-the temporal dimension. Moreover, images acquired at different points during the transit of a contrast agent or during different functional phases add a fifth dimension-functional data. To facilitate real-time image navigation in the resultant large multidimensional image data sets, the authors developed a Digital Imaging and Communications in Medicine-compliant software program. The open-source software, called OsiriX, allows the user to navigate through multidimensional image series while adjusting the blending of images from different modalities, image contrast and intensity, and the rate of cine display of dynamic images. The software is available for free download at http://homepage.mac.com/rossetantoine/osirix.

Humans↗
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Informatics in radiology (infoRAD): Vendor-neutral case input into a server-based digital teaching file system.

Although digital teaching files are important to radiology education, there are no current satisfactory solutions for export of Digital Imaging and Communications in Medicine (DICOM) images from picture archiving and communication systems (PACS) in desktop publishing format. A vendor-neutral digital teaching file, the Radiology Interesting Case Server (RadICS), offers an efficient tool for harvesting interesting cases from PACS without requiring modifications of the PACS configurations. Radiologists push imaging studies from PACS to RadICS via the standard DICOM Send process, and the RadICS server automatically converts the DICOM images into the Joint Photographic Experts Group format, a common desktop publishing format. They can then select key images and create an interesting case series at the PACS workstation. RadICS was tested successfully against multiple unmodified commercial PACS. Using RadICS, radiologists are able to harvest and author interesting cases at the point of clinical interpretation with minimal disruption in clinical work flow.

Computer-Assisted Instruction↗
PubMed2004

X-tile: a new bio-informatics tool for biomarker assessment and outcome-based cut-point optimization.

The ability to parse tumors into subsets based on biomarker expression has many clinical applications; however, there is no global way to visualize the best cut-points for creating such divisions. We have developed a graphical method, the X-tile plot that illustrates the presence of substantial tumor subpopulations and shows the robustness of the relationship between a biomarker and outcome by construction of a two dimensional projection of every possible subpopulation. We validate X-tile plots by examining the expression of several established prognostic markers (human epidermal growth factor receptor-2, estrogen receptor, p53 expression, patient age, tumor size, and node number) in cohorts of breast cancer patients and show how X-tile plots of each marker predict population subsets rooted in the known biology of their expression.

Adult↗