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At least 343 records · Page 19Linked to original sources
PubMed1985

SEQ-ED: an interactive computer program for editing, analysis and storage of long DNA sequences.

The rapidly growing body of sequenced DNA demands efficient computer programs for its analysis and storage. The program described in this paper, SEQ-ED, has been designed to handle a large number of DNA sequences up to 200 kilobases [kb] long stored in a sequence library. In order to minimize the required storage space, the sequences are stored in a compressed format using three binary digits per base. In the development of this program, special care has been given to make it easy to use for molecular biologists without any previous computer experience.

Algorithms↗
PubMed1995

Development of a computer program for teaching periodontal diagnosis based on clinical epidemiological principles.

Multimedia teaching tools in dental education are still rare. This paper describes the development of an inexpensive yet powerful computer program for instruction in the principles of clinical epidemiology. The application was developed in the context of periodontal diagnostic methodologies at the third year D.D.S. level. Principles of probabilistic thinking are invoked as the student is guided from the application of raw research data to the derivation of likelihood ratios and how they affect clinical decision making. A questionnaire was used to evaluate student satisfaction with the program and the responses indicated good acceptance of the concepts presented in the program and an interest in further computer-aided instruction.

Computer-Assisted Instruction↗
PubMed1979

A computer program for the analysis of dental models.

This paper presents the details and logic of a Fortran computer program which carries out routine clinical analysis of dental models resulting from impressions of the teeth and related structures, which are subsequently cast in plaster of Paris. The program is primarily intended for use by the orthodontist who is engaged in research or clinical practice, and is useful in studies related to changes in the dentition as a result of orthodontic treatment.

Computers↗
PubMed1984

A computer program for estimating thresholds by means of Wetherill's Up-Down Transformed Response Rule (UDTR).

A Fortran IV computer program is presented which allows for automatic estimation of thresholds on an S-shaped psychometric curve by means of Wetherill's Up-Down Transformed Response Rule (UDTR). The efficiency and asymptotic properties of these rules are discussed and illustrated. The main program is in the form of a keyboard portable tutorial which calls the main decision-making subroutine. The subroutine can be detached from the tutorial. Only a single call with seven parameters is required to reach the subroutine. The program is particularly useful in forced-choice procedures.

Auditory Threshold↗
PubMed1987

[Optimizing ruminant feed rations from the physiological aspect with FURAT, a personal computer program].

Health disorders caused by feeding are a common problem in cattle keeping. For this reason the personal computer program, FURAT, was developed for the calculation and optimization of ruminant feed rations with respect to physiological aspects. With this program, weighed feed rations selected from the feedstuff on the standard list or from a self-drawn up feedstuff list can be tested for their content of various nutrients and compared with the requirements of the animals to be fed. Subsequently in an optimization program using the same feedstuff rations can be worked out for various performance categories ensuring the best possible feeding from the health aspect. With a free choice within a feed range and taking into account the physiological limits of the rumen (maximum compound intake, minimum raw fiber amount in the dry matter, minimum structure in the raw fiber, maximum raw fat in the dry matter) the ration is calculated to achieve a balanced protein-energy ratio. One of the two main nutrients--protein or energy--must amount exactly to the target value in the ration, and the other has to be as close as possible to its target value. From among up to 12 different feedstuff the computer will choose the optimal ration which can be printed with a precise indication of all parameters. The rations worked out for the various performance categories are stored and, at the end of the program, are printed in short form in a letter addressed to the farmer that also lists necessary mineral supplements.

Animal Feed↗
PubMed1987

Evaluation of a Bayesian regression-analysis computer program using non-steady-state phenytoin concentrations.

The predictive performance of a Bayesian regression-analysis computer program that uses non-steady-state phenytoin data was evaluated. Forty patients receiving phenytoin or phenytoin sodium who had two or more non-steady-state serum concentrations were selected for study. Additional serum concentrations and dosing data were collected as they became available, but no effort was made to control the number or timing of serum concentration determinations. Patients were categorized into four groups for evaluation of the effect of potential bioavailability problems and length of dosing history (time over which serum concentration-time data were collected) on the ability to predict subsequent phenytoin concentrations. Population parameters for phenytoin maximum rate of elimination (Vmax), apparent Michaelis-Menten constant (Km), volume of distribution (V), and bioavailability (F) were obtained from the literature. Predictions based on serum phenytoin concentrations and dosing histories (information intervals) of 5 or 10 days were compared with predictions based on naive (population-based) estimates using prediction-error analysis. In each patient group, the use of either 5-day or 10-day information intervals resulted in a significant increase in precision and a significant reduction in bias compared with naive estimates. For the group of patients who initially had two or more serum concentrations within the first five days of monitoring, predictions showed a marked increase in bias and a decrease in precision as the time interval from the last measured concentration to the time of prediction increased.(ABSTRACT TRUNCATED AT 250 WORDS)

Bayes Theorem↗
PubMed1987

[Comparison of 3 ECG computer programs with interpretation by physicians].

Three ECG computer programs-Hewlett Packard analog program (HP), Telemed analog program (T) and Marquette 12 SL digital program (MAC)-were evaluated and their accuracy of ECG reading compared with the reading of 4 experienced interpreters on 140 ECGs of patients with various clinical abnormalities. Major disagreement with effect on patient management, and minor disagreement were defined at a joint session with a senior (consensus). The computers identified all normal ECGs correctly (sensitivity 100%). The percentage of major agreements (full agreements and minor disagreements) between consensus and computer was 79% for HP, 90% for T and 93% for MAC. The number of disagreements varied widely between readers and in relation to the different computers. Major problems for the computers were the interpretation of rhythm disturbances and the diagnosis of myocardial infarction, T-wave changes and ventricular hypertrophy: major diagnoses missed by the readers were first degree AV block, QT prolongation, and myocardial infarction. Although there was a considerable difference of accuracy between the 3 computer systems, all of them are sufficiently accurate to be useful to most clinicians. However, every ECG should be over-read by a physician, particularly if a clinical decision is based on the ECG diagnosis.

Adolescent↗
PubMed2001

MoWeD, a computer program to rapidly deconvolute low resolution electrospray liquid chromatography/mass spectrometry runs to determine component molecular weights.

A computer program is described that can rapidly process low-resolution electrospray liquid chromatography/mass spectrometry (LC/MS) for peptides and proteins and assign molecular weights for observed components. The program first analyzes individual scans using a deconvolution algorithm similar to that previously described by Zhang and Marshall. Results for the entire run are then sorted by mass and those values found in adjacent scans are grouped together. The list of found components can also be compared to a user defined list of target molecular weight values making it easy to compare the results from different analyses. The program also has the capability to process a rolling average of scans that improves the performance when analyzing high molecular weight components. Other program features facilitate closer examination of selected spectra or regions of the chromatogram to check the MoWeD mass assignments. The utility of the program was demonstrated by the analysis of LC/MS data derived from a complex mixture of proteins derived from a bacterial whole cell lysate that had previously been analyzed manually. The MoWeD analysis was 30 times faster and provided a more comprehensive list of the components present.

Bacillus anthracis↗
PubMed1994

Characteristic features of the nucleotide sequences of yeast mitochondrial ribosomal protein genes as analyzed by computer program GeneMark.

The nucleotide sequence data for yeast mitochondrial ribosomal protein (MRP) genes were analyzed by the computer program GeneMark which predicts the presence of likely genes in sequence data by calculating statistical biases in the appearance of consecutive nucleotides. The program uses a set of standard sequence data for this calculation. We used this program for the analysis of yeast nucleotide sequence data containing MRP genes, hoping to obtain information as to whether they share features in common that are different from other yeast genes. Sequence data sets for ordinary yeast genes and for 27 known MRP genes were used. The MRP genes were nicely predicted as likely genes regardless of the data sets used, whereas other yeast genes were predicted to be likely genes only when the data set for ordinary yeast genes was used. The assembled sequence data for chromosomes II, III, VIII and XI as well as the segmented data for chromosome V were analyzed in a similar manner. In addition to the known MRP genes, eleven ORF's were predicted to be likely MRP genes. Thus, the method seems very powerful in analyzing genes of heterologous origins.

Base Sequence↗
PubMed1993

A computer program to aid in calculating similarity indexes from DNA fingerprints.

DNA SIMDEX is a DOS-based computer program designed to assist in the visual scoring of DNA fingerprint assays. DNA SIMDEX uses the migration distances of the individual DNA bands to generate lists of probable matching and nonmatching bands and automatically calculates a probable similarity index between DNA fingerprints based on these initial predictions. After comparisons are edited by the user, the final similarity index, along with accompanying data, can be saved on a floppy disk or hard drive for easy storage and retrieval or can be printed directly on a laser or line printer. The program has been developed to function with or without an image-analysis system, thus making it an inexpensive alternative for small laboratories.

DNA Fingerprinting↗
PubMed1999

PALIREL, a computer program for analyzing particle-to-membrane relations, with emphasis on electron micrographs of immunocytochemical preparations and gold labeled molecules.

Many vital substances, such as receptors, transporters, and ion channels, in cells occur associated with membranes. To an increasing extent their precise localization is demonstrated by immunocytochemical methods including labeling with gold particles followed by electron microscopy. PALIREL has primarily been developed to facilitate such research, enabling rapid analysis of topographic relations of particles (gold or others) to neighboring linear interfaces (membranes). After digitization of membranes and particles, the program particularly allows computation of (1) the particle number and number per unit length of membrane, in individual bins (membrane lengths) interactively defined along the membrane; (2) the distance of each particle from the membrane; (3) the particle number, and the density (number per micron2), in zones defined along (over and under) the membrane; and (4) the particle number and density in "zonebins" resulting from zones and bins being defined simultaneously. If there occurs, somewhere in the membrane, a segment of different nature, such as a synapse, the quantitative data may be had separately for that and the adjoining parts of the membrane. PALIREL allows interactive redefinition of bins, zones, or objects (particle-line files) while other definitions are retained. The results can be presented on the screen as tables and histograms and be printed on request. A dedicated graphic routine permits inspection on screen of lines, particles, zones, and bins. PALIREL is equally applicable to biological investigations of other kinds, in which the topographic relations of points (structures represented as points) to lines (boundaries) are to be examined. PALIREL is available from the authors on a noncommercial basis.

Algorithms↗
PubMedDate not supplied

Computerized calculation of biological potency: presentation of the interactive computer program "POTENCY" (assays: "2 + 2" doses, "3 + 3" doses, "twin cross-over assay" and "probit analysis" ("2 + 2" doses).

Paper presents the interactive computer program "POTENCY" written in BASIC program language, based on the algorithm for classifying biological assays using the assays: "2 + 2" doses, "3 + 3" doses, twin cross-over assay and probit analysis ("2 + 2" doses) described in Yugoslav Pharmacopeia (Ph. Jug. IV). The program execution is presented by assay examples of biological potency calculation described in European Pharmacopeia (Eur. Ph. 1997). The assay-examples have simultaneously been the measure of program execution correctness.

Algorithms↗
PubMedDate not supplied

[Use of computer programs in the education and self-management of patients with insulin-dependent diabetes mellitus].

A computerized program for children and adolescents with insulin dependent diabetes mellitus (IDDM) and their parents has been developed. Our program consists of computed assisted education, of aid to routine insulin dosage self adjustment and of records of home and hospital controls. Technically it has been implemented in DBIII plus: it runs on IBM PC computers (and compatible computers) and MS DOS (version 3.0 and later). Computed assisted education consists of 80 multiples choice questions divided in 2 parts: the first concerns basic informations about diabetes while the second one behavioral attitudes of patient in particular situations. Explanations are displayed after every question, apart from correct of incorrect choice. Help for self-adjustment of routine insulin dosage is offered in the third part. Finally daily home urine and/or blood controls and results of hospital admissions are stored in a database.

Adolescent↗
PubMed1991

PRENRL_3D: a computer program for an automatic creation of NRL_3D, protein sequence-structure database, from the Protein Data Bank.

Recently, we have developed a sequence-structure database of protein information, NRL_3D, that is extracted from the Protein Data Bank (PDB) of the Brookhaven National Laboratory. NRL_3D provides a vehicle for the retrieval of the three-dimensional coordinates of protein fragments as identified by sequence properties. These data are formulated to allow access by standard sequence analysis programs such as those provided by the Protein Identification Resource (PIR). Because the PDB is updated four times per year, semimanual construction of NRL_3D in coordination with these updates becomes a time-consuming and inefficient task. Hence, we have developed a computer program (PRENRL_3D) in the "C" computer language that automatically extracts NRL_3D from the PDB. Although the program was developed in a VAX/VMS environment, care was taken to ensure its portability to other computer systems. Customized versions of the NRL_3D database can be created from the PDB entry files using various options available in PRENRL_3D, such as selection of entries determined at high resolution and with low R-value. The program has been developed modularly and it contains a number of generalized procedures for manipulating various information in the PDB.

Amino Acid Sequence↗
PubMed1997

Use of the QSR.NUD.IST computer program to identify how clinical midwife mentors view their work.

This paper looks at the use of a computer program (QSR.NUD.IST) to analyse qualitative data. The data are derived from interviews with clinical midwife mentors as part of an evaluation of a midwifery educational programme. An account is given of the content analysis of the data with reference to the literature, and then the way the programme was used to analyse the data a second time. A description is given of the way this programme in particular functions using the textual data as an example. The use of computers in general for analysing qualitative data is discussed in terms of their advantages and disadvantages. The results of the study are described briefly showing how the mentors view their role and responsibilities.

Data Interpretation, Statistical↗
PubMed1997

Nail-Tutor: an image-based personal computer program that teaches the anatomy, patterns of pathology, and disorders of the nails.

Despite the clinical relevance of the nails, the interpretation of the appearance of the nails is often neglected by clinicians and in medical training programs. To help overcome this we developed Nail-Tutor(TM), a personal computer program based on approximately 150 images that systematically teaches the anatomy, patterns of pathology, and diseases of the nails and tests the user's understanding of the material in the program. Nail-Tutor(TM) is intended for medical students, residents, other healthcare trainees, general practitioners, and dermatologists and requires approximately 3 hours to use. The program has a number of advantages over textbook-based instruction and supervised instruction. It does not require an instructor or textbook. In addition it uses animation to show an important anatomic relationship, graphic overlays to unambiguously point out key features of images, it can show key images side by side for comparison, and an examination to evaluate learning objectives. The program can be used as a stand-alone teaching module, a supplement to traditional instruction, a source for continuing education, or as a reference.

Computer-Assisted Instruction↗