User Interaction Modeling and Profile Extraction in Interactive Systems: A Groupware Application Case Study.
Ontology highlight
ABSTRACT:
SUBMITTER: Tirnauca C
PROVIDER: S-EPMC5539516 | biostudies-other | 2017 Jul
REPOSITORIES: biostudies-other
Similar Datasets
Project description:Interactive segmentation is a promising approach to solving the pervasive shortage of reference annotations for automated medical image processing. We focus on the challenging task of glioblastoma segmentation in magnetic resonance imaging using a random forest pixel classifier trained iteratively on scribble annotations. Our experiments use data from the MICCAI Multimodal Brain Tumor Segmentation Challenge 2013 and simulate expert interactions using different approaches: corrective annotations, class-balanced corrections, annotations where classifier uncertainty is high, and corrections where classifier uncertainty is high/low. We find that it is better to correct the classifier than to provide annotations where the classifier is uncertain, resulting in significantly better Dice scores in the edema (0.662 to 0.686) and necrosis (0.550 to 0.676) regions after 20 interactions. It is also advantageous to balance inputs among classes, with significantly better Dice in the necrotic (0.501 to 0.676) and nonenhancing (0.151 to 0.235) regions compared to fully random corrections. Corrective annotations in regions of high classifier uncertainty provide no additional benefit, low uncertainty corrections perform worst. Preliminary experiments with real users indicate that those with intermediate proficiency make a considerable number of annotation errors. The performance of corrective approaches suffers most strongly from this, leading to a less profound difference to uncertainty-based annotations.
| S-EPMC5566286 | biostudies-literature
Project description:Cancer cells interact with surrounding stromal fibroblasts during tumorigenesis, but the complex molecular rules that govern these interactions remain poorly understood thus hindering the development of therapeutic strategies to target cancer stroma. We have taken a mathematical approach to begin defining these rules by performing the first large-scale quantitative analysis of fibroblast effects on cancer cell proliferation across more than four hundred heterotypic cell line pairings. Systems-level modeling of this complex dataset using singular value decomposition revealed that normal tissue fibroblasts variably express at least two functionally distinct activities, one which reflects transcriptional programs associated with activated mesenchymal cells, that act either coordinately or at cross-purposes to modulate cancer cell proliferation. These findings suggest that quantitative approaches may prove useful for identifying organizational principles that govern complex heterotypic cell-cell interactions in cancer and other contexts.
| S-EPMC2731225 | biostudies-literature
Project description:Morpheus is a modeling environment for the simulation and integration of cell-based models with ordinary differential equations and reaction-diffusion systems. It allows rapid development of multiscale models in biological terms and mathematical expressions rather than programming code. Its graphical user interface supports the entire workflow from model construction and simulation to visualization, archiving and batch processing.
| S-EPMC3998129 | biostudies-literature
Project description:Collaborative Filtering algorithms provide users with recommendations based on their opinions, that is, on the ratings given by the user for some items. They are the most popular and widely implemented algorithms in Recommender Systems, especially in e-commerce, considering their good results. However, when the information is extremely sparse, independently of the domain nature, they do not present such good results. In particular, it is difficult to offer recommendations which are accurate enough to a user who has just arrived to a system or who has rated few items. This is the well-known new user problem, a type of cold-start. Profile Expansion techniques had been already presented as a method to alleviate this situation. These techniques increase the size of the user profile, by obtaining information about user tastes in distinct ways. Therefore, recommender algorithms have more information at their disposal, and results improve. In this paper, we present the High Order Profile Expansion techniques, which combine in different ways the Profile Expansion methods. The results show 110% improvement in precision over the algorithm without Profile Expansion, and 10% improvement over Profile Expansion techniques.
| S-EPMC6837286 | biostudies-literature
Project description:BackgroundSerious games (SGs) are used as complementary approaches to stimulate patients with dementia. However, many of the SGs use out-of-the-shelf technologies that may not always be suitable for such populations, as they can lead to negative behaviors, such as anxiety, fatigue, and even cybersickness.ObjectiveThis study aims to evaluate how patients with dementia interact and accept 5 out-of-the-shelf technologies while completing 10 virtual reality tasks.MethodsA total of 12 participants diagnosed with dementia (mean age 75.08 [SD 8.07] years, mean Mini-Mental State Examination score 17.33 [SD 5.79], and mean schooling 5.55 [SD 3.30]) at a health care center in Portugal were invited to participate in this study. A within-subject experimental design was used to allow all participants to interact with all technologies, such as HTC VIVE, head-mounted display (HMD), tablet, mouse, augmented reality (AR), leap motion (LM), and a combination of HMD with LM. Participants' performance was quantified through behavioral and verbal responses, which were captured through video recordings and written notes.ResultsThe findings of this study revealed that the user experience using technology was dependent on the patient profile; the patients had a better user experience when they use technologies with direct interaction configuration as opposed to indirect interaction configuration in terms of assistance required (P=.01) and comprehension (P=.01); the participants did not trigger any emotional responses when using any of the technologies; the participants' performance was task-dependent; the most cost-effective technology was the mouse, whereas the least cost-effective was AR; and all the technologies, except for one (HMD with LM), were not exposed to external hazards.ConclusionsMost participants were able to perform tasks using out-of-the-shelf technologies. However, there is no perfect technology, as they are not explicitly designed to address the needs and skills of people with dementia. Here, we propose a set of guidelines that aim to help health professionals and engineers maximize user experience when using such technologies for the population with dementia.
| S-EPMC7439148 | biostudies-literature
Project description:Analyzing the interactions of circular RNAs (circRNAs) is a crucial step in understanding their functional impacts. While there are numerous visualization tools available for investigating circRNA interaction networks, these tools are typically limited to known circRNAs from specific databases. Moreover, these existing tools usually require complex installation procedures which can be time-consuming and challenging for users. There is a lack of a user-friendly web application that facilitates interactive exploration and visualization of circRNA interaction networks. CircNetVis is an interactive online web application to enhance the analysis of human/mouse circRNA interactions. The tool allows three different input formats of circRNAs including circRNA IDs from CircBase, circRNA coordinates (chromosome, start position, end position), and circRNA sequences in the FASTA format. It integrates multiple interaction networks for visualization and investigation of the interplay between circRNA, microRNAs, mRNAs and RNA binding proteins. CircNetVis also enables users to interactively explore the interactions of unknown circRNAs which are not reported from previous databases. The tool can generate interactive plots and allows users to save results as output files for offline usage. CircNetVis is implemented as a web application using R-shiny and freely available for academic use at https://www.meb.ki.se/shiny/truvu/CircNetVis/ .
| S-EPMC10795305 | biostudies-literature
Project description:BACKGROUND:The application of pharmacogenetic results requires demonstrable correlations between a test result and an indicated specific course of action. We developed a computational decision-support tool that combines patient-specific genotype and phenotype information to provide strategic dosage guidance. This tool, through estimating quantitative and temporal parameters associated with the metabolism- and concentration-dependent response to warfarin, provides the necessary patient-specific context for interpreting international normalized ratio (INR) measurements. METHODS:We analyzed clinical information, plasma S-warfarin concentration, and CYP2C9 (cytochrome P450, family 2, subfamily C, polypeptide 9) and VKORC1 (vitamin K epoxide reductase complex, subunit 1) genotypes for 137 patients with stable INRs. Plasma S-warfarin concentrations were evaluated by VKORC1 genotype (-1639G>A). The steady-state plasma S-warfarin concentration was calculated with CYP2C9 genotype-based clearance rates and compared with actual measurements. RESULTS:The plasma S-warfarin concentration required to yield the target INR response is significantly (P < 0.05) associated with VKORC1 -1639G>A genotype (GG, 0.68 mg/L; AG, 0.48 mg/L; AA, 0.27 mg/L). Modeling of the plasma S-warfarin concentration according to CYP2C9 genotype predicted 58% of the variation in measured S-warfarin concentration: Measured [S-warfarin] = 0.67(Estimated [S-warfarin]) + 0.16 mg/L. CONCLUSIONS:The target interval of plasma S-warfarin concentration required to yield a therapeutic INR can be predicted from the VKORC1 genotype (pharmacodynamics), and the progressive changes in S-warfarin concentration after repeated daily dosing can be predicted from the CYP2C9 genotype (pharmacokinetics). Combining the application of multivariate equations for estimating the maintenance dose with genotype-guided pharmacokinetics/pharmacodynamics modeling provides a powerful tool for maximizing the value of CYP2C9 and VKORC1 test results for ongoing application to patient care.
| S-EPMC3131846 | biostudies-literature
Project description:Eco-cities have witnessed rapid growth in these years worldwide. As the Eco-cities entering operation stage gradually, more and more researchers have found that users (who are living or working in the Eco-cities) satisfaction is one of the most important factors to determine the success or failure of Eco-cities. Therefore, it is very important to investigate the user demands to attract more citizens willing to live or work in the Eco-cities, which will make the development of Eco-cities more sustainable and solid. The recent researches on user demands investigation and analysis in the Eco-cities mainly focused on understanding the user need itself, yet lack of research on the relationship between the user demand and user satisfaction. This paper initially introduced the Kano model analysis method to the research field of user demands in Eco-city, to explore the relationship between the user demand and user satisfaction. After proposing user demands library in Eco-city (including Land use, Ecological environment, Green building, Energy utilization, etc.), the user demands classification and importance analysis methods of Eco-city were proposed based on Kano model. The questionnaire survey for users of two Eco-cities in China as case study was conducted, consisted of user demand items questionnaire based on the Kano model and a questionnaire on the importance of the user demand items. By utilizing the integration of quantitative analysis methods based on the Kano model and Analytic Hierarchy Process (AHP) method, the final ranking of user demands importance was obtained. Comparing with the existing literatures in terms of user demands research for Eco-city, the user demands analysis method based on Kano model of this paper, is able to reveal the influence degree of user satisfaction towards the facilities and services provided in the Eco-city. The user demands analysis method can be used for other researchers worldwide to investigate and quantitively analyze user demands according to their local development situation and preference of Eco-city. The user demands analysis results obtained through this method, can benefit different stages of Eco-city.
| S-EPMC7946302 | biostudies-literature
Project description:Drug-drug interactions (DDIs) constitute an important problem in postmarketing pharmacovigilance and in the development of new drugs. The effectiveness or toxicity of a medication could be affected by the co-administration of other drugs that share pharmacokinetic or pharmacodynamic pathways. For this reason, a great effort is being made to develop new methodologies to detect and assess DDIs. In this article, we present a novel method based on drug interaction profile fingerprints (IPFs) with successful application to DDI detection. IPFs were generated based on the DrugBank database, which provided 9,454 well-established DDIs as a primary source of interaction data. The model uses IPFs to measure the similarity of pairs of drugs and generates new putative DDIs from the non-intersecting interactions of a pair. We described as part of our analysis the pharmacological and biological effects associated with the putative interactions; for example, the interaction between haloperidol and dicyclomine can cause increased risk of psychosis and tardive dyskinesia. First, we evaluated the method through hold-out validation and then by using four independent test sets that did not overlap with DrugBank. Precision for the test sets ranged from 0.4-0.5 with more than two fold enrichment factor enhancement. In conclusion, we demonstrated the usefulness of the method in pharmacovigilance as a DDI predictor, and created a dataset of potential DDIs, highlighting the etiology or pharmacological effect of the DDI, and providing an exploratory tool to facilitate decision support in DDI detection and patient safety.
| S-EPMC3592896 | biostudies-other
Project description:Spatial transcriptomics (ST) is a powerful tool for understanding tissue biology and disease mechanisms. However, the advanced data analysis and programming skills required can hinder researchers from realizing of the full potential of ST. To address this, we developed spatialGE, a web application that simplifies the analysis of ST data. The application spatialGE provided a user-friendly interface that guides users without programming expertise through various analysis pipelines, including quality control, normalization, domain detection, phenotyping, and multiple spatial analyses. It also enabled comparative analysis among samples and supported various ST technologies. The utility of spatialGE was demonstrated through its application in studying the tumor microenvironment of two data sets: 10X Visium samples from a cohort of melanoma metastasis and Nanostring CosMx fields of vision from a cohort of Merkel cell carcinoma samples. These results support the ability of spatialGE to identify spatial gene expression patterns that provide valuable insights into the tumor microenvironment and highlight its utility in democratizing ST data analysis for the wider scientific community.
2024-11-21 | GSE271422 | GEO