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PubMed2001

'The surface management system' (SuMS) database: a surface-based database to aid cortical surface reconstruction, visualization and analysis.

Surface reconstructions of the cerebral cortex are increasingly widely used in the analysis and visualization of cortical structure, function and connectivity. From a neuroinformatics perspective, dealing with surface-related data poses a number of challenges. These include the multiplicity of configurations in which surfaces are routinely viewed (e.g. inflated maps, spheres and flat maps), plus the diversity of experimental data that can be represented on any given surface. To address these challenges, we have developed a surface management system (SuMS) that allows automated storage and retrieval of complex surface-related datasets. SuMS provides a systematic framework for the classification, storage and retrieval of many types of surface-related data and associated volume data. Within this classification framework, it serves as a version-control system capable of handling large numbers of surface and volume datasets. With built-in database management system support, SuMS provides rapid search and retrieval capabilities across all the datasets, while also incorporating multiple security levels to regulate access. SuMS is implemented in Java and can be accessed via a Web interface (WebSuMS) or using downloaded client software. Thus, SuMS is well positioned to act as a multiplatform, multi-user 'surface request broker' for the neuroscience community.

Brain Mapping↗
PubMed1985

Clinician use of a pediatric cardiology database on a microcomputer.

A pediatric cardiology database was designed and implemented on a microcomputer using the MEDUS/A (Harvard School of Public Health) database management system. This database has potential utility in the areas of clinical research, patient management, and administration. Initial uses of the system include a study of ventricular septal defects, and automation of pacemaker clinic and cardiac catheterization laboratory records. Clinicians with little or no programming experience can alter the database structure and tailor complicated applications to their particular needs. Preliminary evaluation of the system is presented.

Cardiac Catheterization↗
PubMed2005

Efficient analysis and extraction of MS/MS result data from Mascot result files.

BACKGROUND: Mascot is a commonly used protein identification program for MS as well as for tandem MS data. When analyzing huge shotgun proteomics datasets with Mascot's native tools, limits of computing resources are easily reached. Up to now no application has been available as open source that is capable of converting the full content of Mascot result files from the original MIME format into a database-compatible tabular format, allowing direct import into database management systems and efficient handling of huge datasets analyzed by Mascot. RESULTS: A program called mres2x is presented, which reads Mascot result files, analyzes them and extracts either selected or all information in order to store it in a single file or multiple files in formats which are easier to handle downstream of Mascot. It generates different output formats. The output of mres2x in tab format is especially designed for direct high-performance import into relational database management systems using native tools of these systems. Having the data available in database management systems allows complex queries and extensive analysis. In addition, the original peak lists can be extracted in DTA format suitable for protein identification using the Sequest program, and the Mascot files can be split, preserving the original data format. During conversion, several consistency checks are performed. mres2x is designed to provide high throughput processing combined with the possibility to be driven by other computer programs. The source code including supplement material and precompiled binaries is available via http://www.protein-ms.de and http://sourceforge.net/projects/protms/. CONCLUSION: The database upload allows regrouping of the MS/MS results using a database management system and complex analyzing queries using SQL without the need to run new Mascot searches when changing grouping parameters.

Databases, Factual↗
PubMed1989

Information management for data retrieval in a picture archive and communication system.

Data stored in a Picture archive and communication system (PACS) must be organized to permit efficient retrieval. The concept of a unique data object identifier (UID) permits a fundamental partitioning of the problem into a storage system, indexed by UID, and a database containing descriptive elements. The database serves to map user retrieval requests, expressed in terms of clinically relevant descriptive elements, and into UIDs of specific data objects. Different data organization mechanisms are employed by imaging modalities, thereby making the structure of a generic PACS database complex. One solution may be derived by analogy from film-based systems. Images and other data objects may be organized, by application of modality and site specific rules, into electronic folders. Folders may then be organized into a patient master folder or user-defined reference folders. Such an organization provides an easily understood user access model for information stored in PACS archives. This report presents a PACS architecture comprised of an Information Management System (IMS) and Information Storage System (ISS). Entity-relationship diagrams are presented to define a schema for the IMS database, based on the folder analogy. The folder concept and its relationship to the ACR-NEMA Standard are discussed.

Computer Systems↗
PubMed1993

An object model for uniform access to heterogeneous databases.

The vast amount of patient information collected and maintained by hospitals is seldom stored in a single database. Much programming effort is wasted on formulating specific queries for each of several data sources, rather than focusing attention on developing the intended functionality of the application. This problem becomes more apparent as more data sources become available. The most obvious strategy for dealing with this multiplicity of data sources, namely storing all data in a single database, is impractical for reasons such as security and administrative control. This paper describes one possible solution to managing access to several database systems within applications. Using object-oriented techniques, the solution identifies the commonality among database management systems and provides a uniform method of communication between applications and databases. We describe a C(++)-based implementation which embodies these concepts.

Computer Communication Networks↗
PubMed1984

MRIDIR--a system for integrating research databases.

Lederle's Medical Research Integrated Database Information Retrieval (MRIDIR) system provides timely and facile access to a growing body of computerized, in-house data relating to pharmaceutical discovery and development. It was created in response to a proliferation of special-purpose programs, each dealing with a specific dataset and each with its own query syntax. Written in FORTRAN and interfacing to the System-1022 Database Management System, MRIDIR provides relational links between these datasets and, from the user's viewpoint, integrates them into a single database with a simple query language. A special dataset called the "data dictionary" describes these linkages, and alterations to the database structure (eg, addition of new datasets) are smoothly accomplished through changes to the data dictionary.

Drug Evaluation↗
PubMed1996

A relational database for storing clinical information.

In medicine, we are constantly acquiring, recording, and analyzing data. Database programs give us a powerful tool to save and report our data. While spreadsheets and even word processing software can store simple datasets, the complexity of data storage needs in medicine often requires the use of a database program. Using most database software was difficult task for the casual user until recently, new, powerful programs were introduced by several developers. Microsoft Access, which is licensed for use with the purchase of many new computers, is an extremely powerful and relatively easy to use program written for the Windows operating systems. With this program, even novices to database programming can learn to construct useful database management systems.

Database Management Systems↗
PubMed2005

Everything you need to know about the chartless office.

One of the biggest buzzwords in the dental industry today is "chartless office." A chartless office vastly improves many of the conventional components in a dental office, including patient management, information flow, and image management. Still, many dentists have raised questions about what is entailed in implementing this system, and the truth is, there are some common misconceptions surrounding this concept of offices without charts.

Computer Systems↗
PubMed2005

Clinical terminology support for a national ambulatory practice outcomes research network.

The Medical Quality Improvement Consortium (MQIC) is a nationwide collaboration of 74 healthcare delivery systems, consisting of 3755 clinicians, who contribute de-identified clinical data from the same commercial electronic medical record (EMR) for quality reporting, outcomes research and clinical research in public health and practice benchmarking. Despite the existence of a common, centrally-managed, shared terminology for core concepts (medications, problem lists, observation names), a substantial "back-end" information management process is required to ensure terminology and data harmonization for creating multi-facility clinically-acceptable queries and comparable results. We describe the information architecture created to support terminology harmonization across this data-sharing consortium and discuss the implications for large scale data sharing envisioned by proponents for the national adoption of ambulatory EMR systems.

Ambulatory Care Information Systems↗
PubMed1992

A profile for molecular biology databases and information resources.

This paper examines the requirements for building database management systems and multi-database information resources to support molecular biology research. The paper profiles the most important features of 16 integrated resources and 102 databases related to molecular biology research. The aspects surveyed in this paper include the nature of information in these databases, their sizes, update properties, cross-references, database management system heterogeneity, geographical distribution, data quality, use of temporal information and level of interpretation. The paper also comments on the access patterns to these databases. Since not all these aspects were available for all databases, specific comparisons sometimes compare fewer than the full 102 databases. Consequently, the same set of databases is not necessarily always being compared with respect to every aspect. The paper is organized primarily according to these comparison aspects and ends with some concluding remarks.

Databases, Bibliographic↗
PubMedDate not supplied

Independent double reading system. Application of digital image management database.

The most important role in a radiologist's work is communicating his findings to the attending physician. This is difficult when the radiologic examinations are performed with portable X-ray units because the attending physician wishes to read the images as soon as possible. To resolve this problem, we have developed an independent double reading system. The hardware consists of a magnetic card reader, a display station, a personal computer and a mouse, all linked with the digital image database and a communication network between HIS and RIS. We also present the software of this system and evaluate the results of the implementation to establish the accuracy of the technique. It was concluded that this system could expand the contribution of the radiologist to portable radiographic examinations and to improve the quality of the RIS database.

Computer Systems↗
PubMed1992

Criteria-based adverse drug reaction reporting and the use of a relational database.

The criteria-based ADR reporting program at Shands Hospital has been successful. When the Joint Commission reviewed this program in January 1991, they were satisfied that it met their standards. Efforts are now focusing on improving the capture of ADRs, which will make the information available from the database even more valuable. Data from Shands Hospital will contribute to postmarketing surveillance, patient care, and staff education, and these data will influence drug usage evaluations and the formulary. Observations will be used to recommend alternate therapies to prevent ADRs as well as methods to manage reactions should they occur. The listing of criteria has facilitated the reporting of ADRs at Shands Hospital, and communication of the information has been greatly enhanced by the ADR database. Efficiency has been improved as a result.

Adverse Drug Reaction Reporting Systems↗
PubMed1997

Managing medical research data with a Web-Interfacing Repository Manager.

This paper describes the Web-Interfacing Repository Manager (WIRM), a perl toolkit for managing and deploying multimedia data, which is built entirely from free, platform-independent components. The WIRM consists of an object-relational API layered over a relational database, with built-in support for file management and CGI programming. The basic underlying data structure for all WIRM data is the repository object, a perl associative array whose values are bound to a row of a table in the relational database. Based on our experience implementing a target application (the Brain Mapper Console), we describe five stages through which a system passes as it evolves from a primitive file hierarchy to a full-fledged repository console.

Brain Mapping↗
PubMed2003

Applying database technology to clinical and basic research bioinformatics projects.

This paper describes the application of database technology to medical information with the goal of providing medical and clinical researchers with the tools necessary to plan bioinformatics projects. Commercial database management systems were utilized, standard database design practices were applied, a user interface was created, data entered, and the development of analysis tools, including data mining technologies is underway. Databases were constructed based on animal and cell culture models of diabetes and clinical data. Bioinformatics is a useful tool in both basic research and clinical settings. The advantages of relational databases and an approach to managing bioinformatics projects are discussed.

Animals↗
PubMed1996

Developing microcomputer-based quality assurance systems for health care.

Points out some important issues that must be dealt with when developing microcomputer-based QA systems for health care. While no single solution to the problems associated with quality assurance (QA) system development exists, the first step towards an efficient and effective approach is problem identification and commitment to developing a strategy which addresses the issues discussed in this paper. Examines potential solution alternatives and associated pitfalls, and gives an example of designing a QA system, including a database management system with suggestions for spreadsheet templates.

Computer Security↗
PubMed1993

An optical scan/statistical package for clinical data management in C-L psychiatry.

This paper explores aspects of the need for clinical database management systems that permit ongoing service management, measurement of the quality and appropriateness of care, databased administration of consultation liaison (C-L) services, teaching/educational observations, and research. It describes an OPTICAL SCAN databased management system that permits flexible form generation, desktop publishing, and linking of observations in multiple files. This enhanced MICRO-CARES software system--Medical Application Platform (MAP)--permits direct transfer of the data to ASCII and SAS format for mainframe manipulation of the clinical information. The director of a C-L service may now develop his or her own forms, incorporate structured instruments, or develop "branch chains" of essential data to add to the core data set without the effort and expense to reprint forms or consult with commercial vendors.

Computer Systems↗
PubMed1991

Use of a microcomputer database system in a statewide effort for data collection in medical genetics.

The Genetics Office Automation System (GOAS) is a database management system for the collection and reporting of medical genetics data. We have previously reported on its implementation in a single university center [1,2]. We report here on its implementation in a coordinated data collection effort for the State of Missouri. We discuss the current status of the data collection activities and procedures to share data collected at an individual center with state, regional, and national data collection efforts.

Data Collection↗
PubMed1996

[Development of a base system for information dissemination of the Internet].

The development of information and computing infrastructure at NIHS (NICI), enabled us to provide a good environment for storing information that can be accessed by the Internet. Information can be stored either on WWW servers or on databases. All databases were developed on PC using database management systems such as 4th Dimension or Access, and were transferred to a UNIX machine with the database management system Sybase. A tool for accessing databases via the WWW (Web) was developed. This interface program used a freeware called Genera. Tools were also implemented for handling the so called VRML worlds.

Computer Communication Networks↗