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PubMed1988

Use of a computer data file for storage of heat resistance data on bacterial spores.

The use of a computer data file to compile published heat resistance data on bacterial spores is described. Information relating to sporulation, heating and recovery of the spores, in addition to decimal reduction times at different temperatures has been stored. The data file was constructed using Minitab and an indexer program on a VAX 11/750 computer operating on VMS. Storage of the data in this way enables rapid manipulation and analysis of large quantities of information relating to heat resistance of bacterial spores.

Clostridium↗

PubMed1977

The Protein Data Bank. A computer-based archival file for macromolecular structures.

The Protein Data Bank is a computer-based archival file for macromolecular structures. The Bank stores in a uniform format atomic co-ordinates and partial bond connectivities, as derived from crystallographic studies. Text included in each data entry gives pertinent information for the structure at hand (e.g. species from which the molecule has been obtained, resolution of diffraction data, literature citations and specifications of secondary structure). In addition to atomic co-ordinates and connectivities, the Protein Data Bank stores structure factors and phases, although these latter data are not placed in any uniform format. Input of data to the Bank and general maintenance functions are carried out at Brookhaven National Laboratory. All data stored in the Bank are available on magnetic tape for public distribution, from Brookhaven (to laboratories in the Americas), Tokyo (Japan), and Cambridge (Europe and worldwide). A master file is maintained at Brookhaven and duplicate copies are stored in Cambridge and Tokyo. In the future, it is hoped to expand the scope of the Protein Data Bank to make available co-ordinates for standard structural types (e.g. alpha-helix, RNA double-stranded helix) and representative computer programs of utility in the study and interpretation of macromolecular structures.

Computers↗

PubMed1984

Non-selective conductance in calcium channels of frog muscle: calcium selectivity in a single-file pore.

Voltage-clamp studies were carried out to compare currents through Ca2+ channels (ICa) with Na+ currents (Ins) through a non-selective cation conductance blocked by micromolar concentrations of external Ca2+. The gating of both currents was found to have similar time and voltage dependence. The amplitudes of ICa and Ins varied widely, but Ins was always large in fibres with large ICa, and small in fibres with small ICa. Both ICa and Ins were blocked by the specific Ca2+ channel blocker nifedipine, with half-blockage concentrations that were virtually identical (KD = 0.9 microM for ICa and 0.7 microM for Ins). ICa and Ins were also equally sensitive to block by diltiazem (KD = 80 microM). These parallels between Ins and ICa are most easily explained if Ins flows through Ca2+ channels. Apparently, Ca2+ channels bear high-affinity Ca2+-binding sites, and are highly permeable to monovalent cations when Ca2+ is absent. Ba2+ currents (IBa) and ICa were measured in external solutions containing mixtures of Ba2+ and Ca2+. IBa is blocked by Ca2+, as is Ins. Adding Ba2+ to Ca2+ produces only small or no increases in current, as if Ba2+ is only sparingly permeant when Ca2+ is present. Membrane currents in Ba2+/Ca2+ mixtures show anomalous mole-fraction behaviour, suggesting that Ca2+ channels are single-file, multi-ion pores. Complex current transients are observed under maintained depolarizations in Na+/Ca2+ and Ba2+/Ca2+ mixtures. They suggest that in ion mixtures, Ca2+ channels transport Ca2+ in preference to Na+ and Ba2+. Hence Ca2+ channels are selective for Ca2+, even though current amplitudes suggest that the Na+ or Ba2+ permeabilities in the absence of Ca2+ are as high as, or higher than, the Ca2+ permeability. We conclude that the selective permeability of Ca2+ channels depends on the presence of Ca2+. In model calculations, our observations are explained as a consequence of Ca2+ channels being single-file pores. It is proposed that Ca2+ channels derive much of their ion selectivity from high-affinity Ca2+ binding sites located in an otherwise unselective aqueous pore.

Action Potentials↗

PubMed1996

NMR Studies of Single-File Diffusion in Unidimensional Channel Zeolites

Single-file diffusion is the restricted propagation of particles that cannot pass each other. The occurrence of this phenomenon should be reflected by a change in the time dependence of the mean particle displacement in comparison with ordinary diffusion. Although this process is considered to be the rate-controlling mechanism in a large variety of processes, so far no direct evidence of this phenomenon has been provided. Diffusion measurements made with pulsed field gradient nuclear magnetic resonance (NMR) in unidimensional pore systems (zeolites AlPO4-5 and Theta-1) reflect the expected time dependence of single-file diffusion.

Journal Article↗

PubMed2000

Single-file diffusion of colloids in one-dimensional channels

Single-file diffusion, prevalent in many processes, refers to the restricted motion of interacting particles in narrow micropores with the mutual passage excluded. A single-filing system was developed by confining colloidal spheres in one-dimensional circular channels of micrometer scale. Optical video microscopy study shows evidence that the particle self-diffusion is non-Fickian for long periods of time. In particular, the distribution of particle displacement is a Gaussian function.

Journal Article↗

PubMed1977

Maintenance and use of cumulative haematology files on a laboratory computer.

A system is described for the maintenance of cumulative haematology records for selected patients using a laboratory minicomputer with limited storage capacity. Records are indexed by the patient's name and location since, as in the majority of hospital laboratories, there is no unique numbering scheme which covers all patients. The computer system imitates the procedures of manual filing, listing uncertain record matches for human decision. Applications include the production of a regularly updated printing of of cumulative files, the preparation of graphs from cumulative blood count records, and the provision of a summary and follow-up service for general practitioners.

Computers↗

PubMed1993

On the influence of data source in aggregated data studies: a comparative study of suicide information based on death certificates and judicial files.

STUDY OBJECTIVE: The aim was to assess the differences in suicide data obtained from different database sources. DESIGN: Death certificate based data on suicidal deaths were compared with the information obtained from the non-natural death investigation files at the Public Prosecutor's Office. SETTING: The study was confined to the time period of 1981-1984 and to the residents of the district of Leuven (Belgium) who died in the district. MAIN RESULTS: Differences were found in the number of suicidal deaths reported as well as in the demographic variables, the distribution of suicide methods, and the place of death. Sixty percent of the records in both databases could be matched for all variables studied (age, gender, civil state, place of death, and suicide method), and another 10% if only place of death was allowed to differ. For 4.5% of the cases in the judicial files and for 8% of the records in the official statistics database no corresponding record from the other data source could be found. Based on simple probability statistics [P(missing record)+P(different information[present)] the possible minimum global information bias could be estimated to range from 7 to 42%. CONCLUSIONS: Different epidemiological pictures of suicide mortality may result from studying different data sources.

Belgium↗

PubMed1995

Developing a quality improvement database using health insurance data: a guided tour with application to Medicare's National Claims History file.

Health policy researchers are increasingly turning to insurance claims to provide timely information on cost, utilization, and quality trends in health care markets. This research offers an in-depth description of how to systematically transform raw inpatient and ambulatory claims data into useful information for health care management and research using the Health Care Financing Administration's National Claims History file as an example. The topics covered include: (a) understanding the contents and architecture of claims data, (b) creating analytic files from raw claims, (c) technical innovations for health policy studies, (d) assessing data accuracy, (d) the costs of using claims data, and (e) ensuring confidentiality. In summary, claims data are found to have great potential for quality of care analysis. As in any analysis, careful development of a database is required for scientific research. The methods outlined in this study offer health data novices as well as experienced analysts a series of strategies to maximize the value of claims data for health policy analysis.

Aged↗

PubMed1989

The librarian as consultant and educator for personal file management software.

Librarians are encouraged to extend their information managing skills to include familiarity with personal file management software. Knowledge of automated solutions to overgrown manual reprint files can be valuable to the institution that a librarian serves. The capabilities of REFERENCE MANAGER, PRO-CITE, ASKSAM, and SCI-MATE are compared in a series of classes given for faculty and staff by the Medical College of Wisconsin Libraries reference staff.

Consultants↗

PubMed2001

Ion channels permeable to monovalent and divalent cations: a single-file two-site channel model.

A cation channel from Tetrahymena cilia is permeable to both monovalent and divalent cations. A single-file two-site channel model was introduced for explaining the single channel currents of the channel in mixed solutions of K(+) and Ca(2+). In the model it was assumed that two potassium ions or one calcium ion can bind to the binding sites, and that the potassium ions between the binding sites are in a fast equilibrium condition. Single channel currents were calculated from the values of rate constants, ionic concentrations on both sides of the membrane, and the membrane voltages. This model could explain all the observed single channel currents of the channel in K(+) or Ca(2+) solution and in mixed solutions of K(+) and Ca(2+). The values of the reversal potential in the bi-ionic condition could distinguish this single-file two-site channel model from the single-site channel model or the model in which each ion permeates through the same channel independently (the Goldman-Hodgkin-Katz equation). Experimental data supported this model.

Animals↗

PubMed1984

Data-base management system on a CT scanner computer: application to teaching file and procedure records.

A prototype relational data-base management system was installed on computed tomographic (CT) scanner computers at two hospitals. This was used to create computerized indices for a teaching file and a record of CT procedures. Several problems commonly encountered when maintaining and using a radiologic teaching file were solved. Interesting cases were easily retrieved for teaching, conferences, or publication because the system permits rapid search on the basis of patient name, identification number, date, diagnosis, special description, or a combination of these data. The procedure record index contains these data as well as administrative and technical data on all CT examinations. These data are entered into the data base semiautomatically. The result is an extensive set of records that is easily accessible and requires a minimum of manpower to maintain.

Computers↗

PubMed1993

An inexpensive computer-based digital imaging teaching file.

Despite a decade and a half of digital imaging in radiology, most radiology teaching files remain film-based. The reasons include the high cost or unavailability of digital acquisition and display devices. In the past few years, a number of excellent exhibits that combine inexpensive microcomputers with radiologic education have been shown at national meetings [1-6]. Unfortunately, many of these methods require esoteric hardware, expensive or proprietary software, or special programming skills. We developed a simple method for creating and disseminating a teaching file of imaging studies obtained with digital techniques.

Computer-Assisted Instruction↗

PubMed1998

Web-based digital radiology teaching file: facilitating case input at time of interpretation.

OBJECTIVE: Our goal was to develop a software system that allows easy and rapid input of digital radiology images and text reports, at the time of interpretation, into an easily searchable electronic teaching file database using the Internet and the World-Wide Web protocols, servers, and browsers. CONCLUSION: Using the Internet, the World-Wide Web, and our software system, we can rapidly input digital radiology images and associated text reports into an easily searchable database accessed by privileged users. This inexpensive and simple method for building a digital teaching file database allows cross-platform access for users who have a Web browser.

Computer Communication Networks↗

PubMed2000

Internet-based interactive teaching file for neuroradiology.

OBJECTIVE: Our goal was to implement an interactive neuroradiologic teaching file that can be accessed on the Internet and easily expanded to include radiologic, clinical, and pathologic correlation. CONCLUSION: Our growing interactive neuroradiologic teaching file is available on the Internet. It provides an easily accessed database of interesting cases to aid in the study or analysis of difficult cases.

Computer Graphics↗

PubMed2002

MyPACS.net: a Web-based teaching file authoring tool.

OBJECTIVE: We sought to develop a Web service that would easily allow radiologists to create their own online teaching file cases from any Web browser. CONCLUSION: We created MyPACS, a hosted teaching file authoring tool that allows easy uploading of images and descriptive information from any computer with Web access. Radiologists may designate their cases to be public or private (viewable only by the case author), and cases may be retrieved on searching for multiple parameters.

Authorship↗

PubMed1992

A standard file format for data from DNA sequencing instruments.

There are now a number of machines for determining DNA sequences. These devices are currently of two types: those such as the Applied Biosystems 373A and the Pharmacia A.L.F. which interpret the sequences of samples as they run on gels within the machine, and those, such as the Bio-Rad and Amersham readers that scan and analyse conventional autoradiographs. Both types of machine can produce their data in the form of traces which represent the band intensity of each of the four base types at each position in the sequence. At present all the machines write files in different formats. We describe a machine independent format for storing data derived from automatic sequencing machines. Files in this format can store the derived sequence, the traces and a set of confidence measures for each base. We have adopted the format as the standard for our sequence handling software.

Databases, Factual↗

PubMed1994

Graphic file compression on a Macintosh.

AutoDoubler, Compact Pro, DiskDoubler, StuffIt Deluxe, and StuffIt SpaceSaver compression applications for the Macintosh were tested for size of compressed files, and time to compress and expand. EPS, TIFF, PICT and Photoshop native format file types were used, in 1-bit, 8-bit greyscale, 8-bit colour (indexed), 24-bit colour (red, blue, green (RGB)), and 32-bit colour (cyan, magenta, yellow, black (CMYK)) modes. JPEG compression is illustrated by comparing an uncompressed image with three images compressed at different rates.

Computer Graphics↗

PubMed2005

The persistence of object file representations.

Coherent visual experience of dynamic scenes requires not only that the visual system segment scenes into component objects but that these object representations persist, so that an object can be identified as the same object from an earlier time. Object files (OFs) are visual representations thought to mediate such abilities: OFs lie between lower level sensory processing and higher level recognition, and they track salient objects over time and motion. OFs have traditionally been studied via object-specific preview benefits (OSPBs), in which discriminations of an object's features are speeded when an earlier preview of those features occurred on the same object, as opposed to on a different object, beyond general displaywide priming. Despite its popularity, many fundamental aspects of the OF framework remain unexplored. For example, although OFs are thought to be involved primarily in online visual processing, we do not know how long such representations persist; previous studies found OSPBs for up to 1500 msec but did not test for longer durations. We explored this issue using a modified object reviewing paradigm and found that robust OSPBs persist for more than five times longer than has previously been tested-for at least 8 sec, and possibly for much longer. Object files may be the "glue" that makes visual experience coherent not just in online moment-by-moment processing, but on the scale of seconds that characterizes our everyday perceptual experiences. These findings also bear on research in infant cognition, where OFs are thought to explain infants' abilities to track and enumerate small sets of objects over longer durations.

Humans↗