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At least 55 records · Page 3Linked to original sources
PubMed2026

PanForest: predicting genes in genomes using random forests.

MOTIVATION: The presence or absence of some genes in a genome can influence whether other genes are likely to be present or absent. Understanding these gene co-occurrence and avoidance patterns reveals fundamental principles of genome organization, with applications ranging from evolutionary reconstruction to rational design of synthetic genomes. RESULTS: PanForest, presented here, uses random forest classifiers to predict the presence and absence of genes in genomes from the set of other genes present. Performance statistics output by PanForest reveal how predictable each gene's presence or absence is, based on the presence or absence of other genes in the genome. Further, PanForest produces statistics indicating the importance of each gene in predicting the presence or absence of each other gene. The PanForest software can run serially or in parallel, thereby facilitating the analysis of pangenomes at Network of Life scale.A pangenome of 12 741 accessory genes in 1000 Escherichia coli genomes was analysed in around 5 h using eight processors. To demonstrate PanForest's utility, we present a case study and show that certain genes associated with resistance to antimicrobial drugs reliably predict the presence or absence of other genes associated with resistance to the same drug. Further, we highlight several associations between those genes and others not known to be associated with antimicrobial resistance (AMR), or associated with resistance to other drugs. We envisage PanForest's use in studies from multiple disciplines concerning the dynamics of gene distributions in pangenomes ranging from biomedical science and synthetic biology to molecular ecology. AVAILABILITY AND IMPLEMENTATION: The software if freely available with a full manual and can be found with at www.github.com/alanbeavan/PanForest DOI: https://doi.org/10.5281/zenodo.17865482.

Software↗
PubMed1977

Undergraduate pharmacological training programs applicable to agricultural science majors.

Undergraduate training programs leading to degrees in pharmacology or toxicology do not exist on most university campuses. Agricultural science students who may ultimately use large quantities of herbicides, pesticides, and other agricultural products may obtain degrees without any exposure to the disciplines of pharmacology or toxicology; some reasons for this are discussed. The design and implementation of some courses suited to the qualifications of most undergraduate agricultural science majors are outlined. In general, a blend of lectures, discussions, and student presentations facilitates adequate presentation of the course material. Specific suggestions for student term projects are mentioned. Some of the available textbooks suitable for undergraduate courses of this type are very briefly discussed. It is suggested that in order to educate nonacademic users of agricultural chemicals, pharmacologists and toxicologists may have to work closely with both industry and those closer to the agricultural community such as county agricultural extension agents and farm youth organizations.

Agriculture↗
PubMed1991

The potential use of expert systems to enable physicians to order more cost-effective diagnostic imaging examinations.

Educating physicians to order diagnostic imaging examinations more cost-effectively is a difficult and time consuming task, which may be assisted significantly by the use of an expert system. This report is based on a study undertaken at the Health Sciences Centre in Winnipeg, Manitoba, to determine the feasibility of implementing an expert system to aid physicians in selecting appropriate imaging studies. The report reviews the potential benefits, requirements, and limitations of expert systems under development, and highlights the major issues to be considered in choosing such a system for implementation. An extensive literature search was done and is included to aid the reader interested in pursuing this opportunity for improving the cost-effective utilization of expensive diagnostic imaging resources.

Computer-Assisted Instruction↗
PubMed1990

Hypermedia and randomized algorithms for medical expert systems.

KNET is an environment for constructing probabilistic, knowledge-intensive systems within the axiomatic framework of decision theory. The KNET architecture defines a complete separation between the hypermedia user interface on the one hand, and the representation and management of expert opinion on the other. KNET offers a choice of algorithms for probabilistic inference. We and our coworkers have used KNET to build consultation systems for lymph-node pathology, bone-marrow transplantation therapy, clinical epidemiology, and alarm management in the intensive-care unit. Most important, KNET contains a randomized approximation scheme (RAS) for the difficult and almost certainly intractable problem of Bayesian inference. Our algorithm can, in many circumstances, perform efficient approximate inference in large and richly interconnected models of medical diagnosis. In this article, we describe the architecture of KNET, construct a randomized algorithm for probabilistic inference, and analyze the algorithm's performance. Finally, we characterize our algorithms' empiric behavior and explore its potential for parallel speedups. From design to implementation, then, KNET demonstrates the crucial interaction between theoretical computer science and medical informatics.

Algorithms↗
PubMed1992

Lee-Goldburg solid-state imaging.

A new approach to solid-state imaging (SSI) is presented. The method relies on narrowing the resonance line using the Lee-Goldburg sequence. The technique is easy to implement in practice and may find widespread applications in materials science.

Magnetic Resonance Spectroscopy↗
PubMed1976

A formative and summative evaluation model for special educational programs.

During the past two decades the problems of recruiting minority students into careers in the health fields have been addressed by many educators and various special study groups. Recent efforts by schools of medicine and allied health sciences to find viable solutions to the problem have facilitated implementation of career exploration and study-skills programs. Although the focus and sophistication of evaluation designs vary substantially among educational programs of this type, all share some common problems. The positions taken by the authors is that evaluation, both during and at the end of a program, is an essential aspect of the program and that the use of a systematic evaluation model is central to this effort. Data are presented which illustrate the utility of a systematic evaluation model when applied in a realistic test situation (an operational program for minority students). Several advantages of using this model are discussed.

Career Choice↗
PubMed1977

Subjects' rights, freedom of inquiry, and the future of research in the addictions.

Since the recent passage of regulations concerning subjects' rights and freedom on inquiry, opposition by the public and others to some areas of research in the addictions has prevented its implementation or continuation. Research investigators in the biomedical and behavioral sciences have been placed in the position of defending their work in an adversary climate. The author points out the importance of transmitting to the public, the scientific community, and legislators the investigators' concern that "subjects' rights" not be viewed only in a legalistic context, but also in the context of not harming the patient.

Advisory Committees↗
PubMed1992

Collecting, communicating and using information: the educational issues. A report from the Royal College of Physicians Committee on Medical Information Technology.

Few of the major advances in information science and technology have yet been successfully introduced in health care. Their implementation could improve both quality of care and the working environment of clinicians, but this will not be achieved by investing in hardware and software alone. Investment in education is also required.

Attitude to Computers↗
PubMedDate not supplied

Organizing and implementing an Ilizarov program.

The Ilizarov external fixator has made a profound impact on orthopaedic science. With its circular design, it allows correction of three-dimensional deformities including rotation, angulation, translation, shortening, and widening, as well as lengthening and soft tissue defects. Because this device is largely patient centered and patient operated, it has presented a new challenge and career investment for the orthopaedic nurse. A comprehensive Ilizarov program is necessary to address the total patient and his multiple needs in any facility where the Ilizarov method of treatment is adopted. The Ilizarov program is a multidisciplinary team approach that provides a structure for administering and providing total patient care for the Ilizarov patient and his significant other(s).

External Fixators↗
PubMed2026

Clinical applications of digital twin technology in In Vitro Fertilisation.

BACKGROUND: Digital twin technology, originating from aerospace and manufacturing industries, has emerged as a transformative tool in healthcare. In vitro fertilisation (IVF) faces persistent challenges including suboptimal embryo selection, unpredictable treatment outcomes, and limited personalisation of protocols. Despite advances in assisted reproductive technology, existing literature exhibits fragmentation: artificial intelligence applications in embryo selection, ovarian stimulation, and endometrial assessment have been developed independently without systematic integration into comprehensive treatment frameworks. Digital twin technology offers unprecedented opportunities to create virtual replicas of biological systems, enabling real-time monitoring, predictive modelling, and personalised treatment strategies. AIM: This narrative review aims to critically examine the current applications of digital twin technology in IVF, evaluate its potential benefits and limitations, synthesize existing evidence into an integrative conceptual model, and identify future directions for implementation in reproductive medicine. METHOD: A comprehensive narrative review was conducted using PubMed, Scopus, Web of Science, and IEEE Xplore databases. A narrative review approach was selected over systematic review to accommodate the heterogeneity of evidence types in this emerging field, including theoretical frameworks, simulation studies, and proof-of-concept implementations that would be excluded from systematic reviews. Search terms included "digital twin," "IVF," "in vitro fertilisation," "assisted reproductive technology," "embryo selection," and "predictive modelling." Studies published between 2015 and 2025 were included, focusing on original research articles, systematic reviews, and proof-of-concept studies describing digital twin applications in reproductive medicine. RESULTS: Digital twin technology in IVF demonstrates significant potential across multiple domains including embryo development simulation, ovarian response prediction, endometrial receptivity modelling, and personalised stimulation protocols. Current applications integrate artificial intelligence, machine learning algorithms, time-lapse imaging, and omics data to create comprehensive virtual models. Early evidence suggests improvements in embryo selection accuracy, ovarian response prediction, and treatment protocol optimization, though large-scale randomized controlled trials remain limited. Implementation challenges include data integration complexity, computational requirements, regulatory considerations, and validation requirements. CONCLUSION: Digital twin technology represents a paradigm shift in IVF practice, offering personalised, predictive, and precision medicine approaches. This review synthesizes existing evidence to propose an integrative conceptual model for digital twin implementation across the IVF treatment spectrum, identifies critical knowledge gaps, and establishes research priorities to advance clinical translation. Despite current limitations, continued advancement promises improved success rates and patient outcomes.

Humans↗
PubMed2026

Systematic review of the mutations in the active antigenic site Ø of the prefusion F protein of the Respiratory Syncytial Virus (RSV) following the implementation of monoclonal antibody prophylaxis.

BACKGROUND: Monoclonal antibody (mAb) nirsevimab, which targets the antigenic site &#xd8; of the prefusion F protein (pre-F) of RSV, was introduced for RSV prophylaxis in several countries. METHODS: A systematic search was conducted between January 1, 2022, and July 31, 2026 for studies analyzing substitutions within the epitope of pre-F RSV protein, which is the target of nirsevimab, after the implementation of the mAb. We searched across PubMed, Scopus, Web of Science and ClinicalTrial.gov for studies involving children with confirmed RSV infection, that conducted genomic analysis. RESULTS: Seven studies (five observational and two randomized controlled trials) including 2156 RSV-positive samples (RSV-A: 1347, RSV-B: 809) were analyzed. RSV-A strains showed limited variability within antigenic site &#xd8;, with K65R being the most common substitution and K209E being the only intermediate-resistance RSV-A substitution. RSV-B strains demonstrated substantially higher substitution frequencies, particularly involving I206M, Q209R, and S211N. Most identified substitutions appeared to represent naturally occurring polymorphisms and retained susceptibility to nirsevimab, while multiple RSV-B substitutions and combinations involving residues 64-68 and 204-208 demonstrated reduced susceptibility or high-level resistance. Resistance-associated variants were detected in 28 of 2156 (1.3%) RSV-positive samples and exclusively among nirsevimab breakthrough infections. In a sub-analysis restricted to nirsevimab-treated individuals, resistance-associated variants were significantly more frequent among RSV-B than RSV-A (9.8% vs 0.5%; p&#xa0;<&#xa0;0.001). CONCLUSION: Most substitutions that were detected within the nirsevimab antigenic site reflect ongoing natural RSV evolution and do not significantly affect nirsevimab susceptibility. However, detection of resistance-associated variants highlights the importance of continuous genomic and phenotypic surveillance.

Humans↗
PubMed1990

The key scientific issue of the next century: the science of addiction.

The problem of addiction is believed to be the most important scientific issue of the next century. The solution to the riddle of pharmacologic, psychological, and social addiction to nicotine, heroin, alcohol, and a high-fat diet, and the discovery and implementation of strategies for spreading healthy "addictions" will aid in solving many major public health and social science problems in the next century. All-out efforts should be expended on the comprehensive development of a science of addiction and to the wide-scale effective application of the results of such research in order to promote health, prosperity, and peace for every community in the world.

Forecasting↗
PubMed2025

ConceptDrift: leveraging spatial, temporal and semantic evolution of biomedical concepts for hypothesis generation.

MOTIVATION: Hypothesis generation is a fundamental problem in biomedical text mining that aims to generate ideas that are new, interesting, and plausible by discovering unexplored links between biomedical concepts. Despite significant advances made by existing approaches, they do not fully leverage the evolutionary properties of biomedical concepts. This is limiting because scientific knowledge continually evolves over time, with new facts being added and old ones becoming obsolete. Thus, it is crucial to capture the evolutionary properties of biomedical concepts from multiple perspectives (e.g. spatial, temporal, and semantic) to generate hypotheses that reflect the up-to-date information landscape of the biomedical domain. RESULTS: We introduce a novel framework, ConceptDrift, that models the hypothesis generation task as a sequence of temporal graphlets and simultaneously encodes spatial, temporal, and semantic change. Unlike existing approaches that treat these dimensions independently, ConceptDrift is the first to provide a holistic understanding of concept evolution by integrating them into a unified framework. Grounded in the theories of the Distributional Hypothesis and Conceptual Change, our method adapts these principles to the unique challenges of large-scale biomedical literature. We conduct extensive experiments across multiple datasets and demonstrate that ConceptDrift consistently outperforms state-of-the-art baselines in generating accurate and meaningful hypotheses. Our framework shows immediate practical benefits for web-based literature mining tools in life sciences and biomedicine, offering more robust and predictive feature representations. AVAILABILITY AND IMPLEMENTATION: https://github.com/amir-hassan25/ConceptDrift (DOI: 10.6084/m9.figshare.29975476).

Semantics↗
PubMed1976

Social work training of new health professionals.

The Child Health Associate program provides a model for using social workers in the training of new health professionals. Administratively, social workers have contributed to curriculum development in the behavioral sciences. They have influenced decisions regarding student selection and have developed and implemented a faculty adviser program. Because of their practical experience as primary care practitioners, social workers have been able to define effectively the skills needed by the new professionals to meet the social and emotional needs of their patients. Social workers have made use of their contacts in hospitals and communities to design and implement courses and clinics that combine in a meaningful manner theoretical material and practical experiences in patient contact. Evaluative research in the area of interviewing skills and crisis management demonstrates that the teaching methods applied by the social work profession are effective in increasing the level of students' interviewing skills in clinical practice and help prepare them to recognize familiy crises.

Colorado↗
PubMed1992

Annotated bibliography of hypertext/hypermedia in the health sciences.

Hypertext and hypermedia are important new methods of learning and instruction for the health sciences. Articles cited in this bibliography deal with the creation, development, and implementation of hypertext/hypermedia programs in both academic and clinical environments.

Computer-Assisted Instruction↗
PubMed1991

Bionic organs.

When a lizard loses its tail, a new caudal appendage soon grows to replace the one that is missing. But when a human loses a kidney, severs a peripheral nerve or worse, the spinal cord, that organ is lost forever. Such at least is conventional thinking. But imagine that the victim of an industrial accident with a paralyzed hand could achieve new levels of function by inducing axonal regrowth through a synthetic nerve guidance channel; or that a Parkinsonian patient's symptoms could be relieved by implanting in his brain neural tissue encased in a selectively permeable polymer envelope; or that the inexorable progression of the vascular complications of juvenile diabetes could be stopped, even reversed, by a membrane-protected xenograft of insulin-producing tissue. This is the dream of bionic organ science. It is predicated on two lines of technological achievement: the availability of ultra-thin, biocompatible, selectively permeable polymer membranes which can protect a transplant against immune rejection while allowing solute exchange between the graft and its environment; and the synthesis of novel materials, some biostable, some bioresorbable, which can serve as scaffolding or anchor for tissue regrowth in the geometrically and chemically controlled environment of an implant. The fabrication, growth and survival of composites of living tissues with synthetic polymers, often enhanced by the incorporation of specific cell growth factors or inhibitors, has been demonstrated at the tissue culture level, and extended in vivo to experimental models of human endocrine deficiency or neurological defects. The key to progress with bioartificial organs is the confluence of knowledge ranging from materials science to cell and molecular biology to experimental surgery. Obstacles to clinical implementation of this new therapeutic concept include: large scale procurement of specific tissue structures or isolated postmitotic cells from animal sources; demonstration of safety and efficacy of spontaneously occurring, bioactive tumor cell lines; verification of long-term stability and bio-acceptance of polymer implants; and industrialization of the fabrication process to meet quality control, shelf-life and commercial distribution requirements.(ABSTRACT TRUNCATED AT 400 WORDS)

Animals↗
PubMed1976

Training the renaissance medical illustrator.

The professional training of the medical illustration student has been a subject of controvery for the last few years. Curricula of the schools accredited by the Association of Medical Illustrators have, to varying degrees, undergone change due to new demands on the practicing illustrator. The curriculum in Biomedical Illustration at The University of Texas Health Science Center at Dallas attempts to balance time-proven courses with contemporary problem-solving approaches to the training of the medical illustrator. This paper reflects the history, philosophy and methods of implementation of the course of study leading to the M.A. degree in Biomedical Communication at the University of Texas Health Science Center at Dallas.

Curriculum↗