Search results for "lcsh:Computer applications to medicine. Medical informatics"
showing 10 items of 130 documents
Dynamics of gene regulatory networks and their dependence on network topology and quantitative parameters – the case of phage λ
2019
Background Gene regulatory networks can be modelled in various ways depending on the level of detail required and biological questions addressed. One of the earliest formalisms used for modeling is a Boolean network, although these models cannot describe most temporal aspects of a biological system. Differential equation models have also been used to model gene regulatory networks, but these frameworks tend to be too detailed for large models and many quantitative parameters might not be deducible in practice. Hybrid models bridge the gap between these two model classes – these are useful when concentration changes are important while the information about precise concentrations and binding…
Prediction of the Fundamental Period of Infilled RC Frame Structures Using Artificial Neural Networks
2015
The fundamental period is one of the most critical parameters for the seismic design of structures. There are several literature approaches for its estimation which often conflict with each other, making their use questionable. Furthermore, the majority of these approaches do not take into account the presence of infill walls into the structure despite the fact that infill walls increase the stiffness and mass of structure leading to significant changes in the fundamental period. In the present paper, artificial neural networks (ANNs) are used to predict the fundamental period of infilled reinforced concrete (RC) structures. For the training and the validation of the ANN, a large data set i…
Relative risk estimation of dengue disease at small spatial scale
2017
Abstract Background Dengue is a high incidence arboviral disease in tropical countries around the world. Colombia is an endemic country due to the favourable environmental conditions for vector survival and spread. Dengue surveillance in Colombia is based in passive notification of cases, supporting monitoring, prediction, risk factor identification and intervention measures. Even though the surveillance network works adequately, disease mapping techniques currently developed and employed for many health problems are not widely applied. We select the Colombian city of Bucaramanga to apply Bayesian areal disease mapping models, testing the challenges and difficulties of the approach. Methods…
Selective phenotyping, entropy reduction, and the mastermind game.
2011
Abstract Background With the advance of genome sequencing technologies, phenotyping, rather than genotyping, is becoming the most expensive task when mapping genetic traits. The need for efficient selective phenotyping strategies, i.e. methods to select a subset of genotyped individuals for phenotyping, therefore increases. Current methods have focused either on improving the detection of causative genetic variants or their precise genomic location separately. Results Here we recognize selective phenotyping as a Bayesian model discrimination problem and introduce SPARE (Selective Phenotyping Approach by Reduction of Entropy). Unlike previous methods, SPARE can integrate the information of p…
Association of physical fitness with health-related quality of life in Finnish young men
2010
Abstract Background Currently, there is insufficient evidence available regarding the relationship between level of physical fitness and health-related quality of life (HRQoL) in younger adults. Therefore, the aim of the present study was to investigate the impact of measured cardiovascular and musculoskeletal physical fitness level on HRQoL in Finnish young men. Methods In a cross-sectional study, we collected data regarding the physical fitness index, including aerobic endurance and muscle fitness, leisure-time physical activity (LTPA), body composition, health, and HRQoL (RAND 36) for 727 men [mean (SD) age 25 (5) years]. Associations between HRQoL and the explanatory parameters were ana…
A User-Centered Chatbot (Wakamola) to Collect Linked Data in Population Networks to Support Studies of Overweight and Obesity Causes: Design and Pilo…
2021
[EN] Background: Obesity and overweight are a serious health problem worldwide with multiple and connected causes. Simultaneously, chatbots are becoming increasingly popular as a way to interact with users in mobile health apps. Objective: This study reports the user-centered design and feasibility study of a chatbot to collect linked data to support the study of individual and social overweight and obesity causes in populations. Methods: We first studied the users' needs and gathered users' graphical preferences through an open survey on 52 wireframes designed by 150 design students; it also included questions about sociodemographics, diet and activity habits, the need for overweight and o…
Parallelized short read assembly of large genomes using de Bruijn graphs
2011
Abstract Background Next-generation sequencing technologies have given rise to the explosive increase in DNA sequencing throughput, and have promoted the recent development of de novo short read assemblers. However, existing assemblers require high execution times and a large amount of compute resources to assemble large genomes from quantities of short reads. Results We present PASHA, a parallelized short read assembler using de Bruijn graphs, which takes advantage of hybrid computing architectures consisting of both shared-memory multi-core CPUs and distributed-memory compute clusters to gain efficiency and scalability. Evaluation using three small-scale real paired-end datasets shows tha…
Dataset to assess the shadow effect of an outdoor microalgae culture
2019
[EN] This data in brief (DIB) article is related to a Research article [1]. Microalgae biomass absorb the light photons that are supplied to the culture, reducing the light availability in the inner parts of the photobioreactors. This is known as self-shading or shadow effect. This effect has been widely studied in lab conditions, but information about self-shading in outdoor photobioreactors is scarce. How this shadow effect affects the light availability in an outdoor photobioreactor was evaluated. In addition, advantages and disadvantages of different artificial light sources which can overcome light limitation are described.
Social support for collaboration and group awareness in life science research teams
2019
Background Next-generation sequencing (NGS) technologies have revolutionarily reshaped the landscape of ’-omics’ research areas. They produce a plethora of information requiring specific knowledge in sample preparation, analysis and characterization. Additionally, expertise and competencies are required when using bioinformatics tools and methods for efficient analysis, interpretation, and visualization of data. These skills are rarely covered in a single laboratory. More often the samples are isolated and purified in a first laboratory, sequencing is performed by a private company or a specialized lab, while the produced data are analyzed by a third group of researchers. In this scenario, …
PASSIM – an open source software system for managing information in biomedical studies
2007
Abstract Background One of the crucial aspects of day-to-day laboratory information management is collection, storage and retrieval of information about research subjects and biomedical samples. An efficient link between sample data and experiment results is absolutely imperative for a successful outcome of a biomedical study. Currently available software solutions are largely limited to large-scale, expensive commercial Laboratory Information Management Systems (LIMS). Acquiring such LIMS indeed can bring laboratory information management to a higher level, but often implies sufficient investment of time, effort and funds, which are not always available. There is a clear need for lightweig…