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1.
J Dent Educ ; 84(3): 367-376, 2020 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-32176342

RESUMEN

The aim of this study was to evaluate the contribution of virtual reality to the conventional analogic training environment and show the complementarity of conventional techniques and virtual reality in the learning of dental students. All 88 first-year dental students at a dental school in France in early 2019 were randomly assigned to one of two groups: group 1 (n = 45) was assigned to cavity preparations on a haptic simulator (Virteasy) and group 2 (n = 43) was assigned to conventional practical work on plastic analogue teeth (Kavo). Following three training sessions, the students in group 1 took a final exam on the same plastic analogue teeth exercise. The results showed improvement in the drilling skill of both groups. The simulator-trained group (group 1) had similar results to the plastic analogue-trained group (group 2) in the final test on a plastic analogue tooth. In this study, virtual reality allowed an assessment based on objective criteria and reduced the subjectivity of evaluations conducted on plastic analogue teeth. Considering the saving of supervision and teaching time as well as the material gain offered by virtual reality, the learning methods of haptic simulators are educational options that should be considered by dental educators.


Asunto(s)
Preparación de la Cavidad Dental , Educación en Odontología , Entrenamiento Simulado , Competencia Clínica , Simulación por Computador , Francia , Humanos , Estudiantes de Odontología , Interfaz Usuario-Computador
2.
BMC Bioinformatics ; 21(1): 10, 2020 Jan 09.
Artículo en Inglés | MEDLINE | ID: mdl-31918654

RESUMEN

BACKGROUND: Recently developed methods of protein contact prediction, a crucially important step for protein structure prediction, depend heavily on deep neural networks (DNNs) and multiple sequence alignments (MSAs) of target proteins. Protein sequences are accumulating to an increasing degree such that abundant sequences to construct an MSA of a target protein are readily obtainable. Nevertheless, many cases present different ends of the number of sequences that can be included in an MSA used for contact prediction. The abundant sequences might degrade prediction results, but opportunities remain for a limited number of sequences to construct an MSA. To resolve these persistent issues, we strove to develop a novel framework using DNNs in an end-to-end manner for contact prediction. RESULTS: We developed neural network models to improve precision of both deep and shallow MSAs. Results show that higher prediction accuracy was achieved by assigning weights to sequences in a deep MSA. Moreover, for shallow MSAs, adding a few sequential features was useful to increase the prediction accuracy of long-range contacts in our model. Based on these models, we expanded our model to a multi-task model to achieve higher accuracy by incorporating predictions of secondary structures and solvent-accessible surface areas. Moreover, we demonstrated that ensemble averaging of our models can raise accuracy. Using past CASP target protein domains, we tested our models and demonstrated that our final model is superior to or equivalent to existing meta-predictors. CONCLUSIONS: The end-to-end learning framework we built can use information derived from either deep or shallow MSAs for contact prediction. Recently, an increasing number of protein sequences have become accessible, including metagenomic sequences, which might degrade contact prediction results. Under such circumstances, our model can provide a means to reduce noise automatically. According to results of tertiary structure prediction based on contacts and secondary structures predicted by our model, more accurate three-dimensional models of a target protein are obtainable than those from existing ECA methods, starting from its MSA. DeepECA is available from https://github.com/tomiilab/DeepECA.


Asunto(s)
Interfaz Usuario-Computador , Secuencia de Aminoácidos , Aprendizaje Profundo , Estructura Secundaria de Proteína , Estructura Terciaria de Proteína , Proteínas/química , Alineación de Secuencia
3.
BMC Bioinformatics ; 21(1): 9, 2020 Jan 09.
Artículo en Inglés | MEDLINE | ID: mdl-31918677

RESUMEN

BACKGROUND: Recent technological developments have enabled the measurement of a plethora of biomolecular data from various omics domains, and research is ongoing on statistical methods to leverage these omics data to better model and understand biological pathways and genetic architectures of complex phenotypes. Current reviews report that the simultaneous analysis of multiple (i.e. three or more) high dimensional omics data sources is still challenging and suitable statistical methods are unavailable. Often mentioned challenges are the lack of accounting for the hierarchical structure between omics domains and the difficulty of interpretation of genomewide results. This study is motivated to address these challenges. We propose multiset sparse Partial Least Squares path modeling (msPLS), a generalized penalized form of Partial Least Squares path modeling, for the simultaneous modeling of biological pathways across multiple omics domains. msPLS simultaneously models the effect of multiple molecular markers, from multiple omics domains, on the variation of multiple phenotypic variables, while accounting for the relationships between data sources, and provides sparse results. The sparsity in the model helps to provide interpretable results from analyses of hundreds of thousands of biomolecular variables. RESULTS: With simulation studies, we quantified the ability of msPLS to discover associated variables among high dimensional data sources. Furthermore, we analysed high dimensional omics datasets to explore biological pathways associated with Marfan syndrome and with Chronic Lymphocytic Leukaemia. Additionally, we compared the results of msPLS to the results of Multi-Omics Factor Analysis (MOFA), which is an alternative method to analyse this type of data. CONCLUSIONS: msPLS is an multiset multivariate method for the integrative analysis of multiple high dimensional omics data sources. It accounts for the relationship between multiple high dimensional data sources while it provides interpretable results through its sparse solutions. The biomarkers found by msPLS in the omics datasets can be interpreted in terms of biological pathways associated with the pathophysiology of Marfan syndrome and of Chronic Lymphocytic Leukaemia. Additionally, msPLS outperforms MOFA in terms of variation explained in the chronic lymphocytic leukaemia dataset while it identifies the two most important clinical markers for Chronic Lymphocytic Leukaemia AVAILABILITY: http://uva.csala.me/mspls.https://github.com/acsala/2018_msPLS.


Asunto(s)
Interfaz Usuario-Computador , Genómica/métodos , Humanos , Análisis de los Mínimos Cuadrados , Leucemia Linfocítica Crónica de Células B/metabolismo , Leucemia Linfocítica Crónica de Células B/patología , Síndrome de Marfan/metabolismo , Síndrome de Marfan/patología , Análisis Multivariante , Proteómica/métodos
4.
BMC Bioinformatics ; 21(1): 14, 2020 Jan 10.
Artículo en Inglés | MEDLINE | ID: mdl-31924160

RESUMEN

BACKGROUND: Linkage disequilibrium (LD)-the non-random association of alleles at different loci-defines population-specific haplotypes which vary by genomic ancestry. Assessment of allelic frequencies and LD patterns from a variety of ancestral populations enables researchers to better understand population histories as well as improve genetic understanding of diseases in which risk varies by ethnicity. RESULTS: We created an interactive web module which allows for quick geographic visualization of linkage disequilibrium (LD) patterns between two user-specified germline variants across geographic populations included in the 1000 Genomes Project. Interactive maps and a downloadable, sortable summary table allow researchers to easily compute and compare allele frequencies and LD statistics of dbSNP catalogued variants. The geographic mapping of each SNP's allele frequencies by population as well as visualization of LD statistics allows the user to easily trace geographic allelic correlation patterns and examine population-specific differences. CONCLUSIONS: LDpop is a free and publicly available cross-platform web tool which can be accessed online at https://ldlink.nci.nih.gov/?tab=ldpop.


Asunto(s)
Estudio de Asociación del Genoma Completo , Desequilibrio de Ligamiento , Interfaz Usuario-Computador , Alelos , Frecuencia de los Genes , Genómica/métodos , Haplotipos , Humanos , Polimorfismo de Nucleótido Simple
5.
Forensic Sci Int ; 307: 110142, 2020 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-31927396

RESUMEN

Forensic science is one of the most modern and applied fields of science, today and comprises of various domains. These include Fingerprints analysis, Questioned document analysis, Forensic DNA and serology, Anthropometry, Cyber and Digital forensics, and many other fields. All these fields aid the process of decision making in the courts of law and legal settings; however, DNA profiling and its analyses are one of the most important aspects of forensic science today. In Forensic DNA analysis, the statistical calculations are very important to estimate the conclusiveness of DNA evidence in forensic cases; and to establish paternity and relatedness in civil and criminal matters. These statistics, when performed manually, leave a chance of error or ambiguity in the calculation, and are hectic and time-taking. Therefore, the computer-aided approaches are opted in forensics to perform DNA statistics calculations. Keeping its importance in mind, a highly accurate windows-based software program namely ForeStatistics is proposed in this study. ForeStatistics is rich in features such as DNA statistical calculations, DNA profile management and its matching. The software can estimate random match probabilities for single-source profiles, combined probability of inclusion for mixed profiles, paternity index of a disputed child in duo and trio cases, paternity of the disputed child when the alleged father is related to mother or biological father and relatedness in cases of grandparents/grandchild, avuncular relation and cousin. It is validated through different protocols and the validation of ForeStatistics depicts that it is highly accurate in terms of performing DNA statistics or DNA profile matching. Thus, it is concluded, that ForeStatistics has a great utility in the field of Forensic DNA analysis and can help DNA scientists, in performing various DNA related statistics, accurately and very efficiently. ForeStatistics can be downloaded freely from (http://zeetu.org/forestatistics.html).


Asunto(s)
Biometría , Dermatoglifia del ADN , Paternidad , Programas Informáticos , Humanos , Funciones de Verosimilitud , Probabilidad , Interfaz Usuario-Computador
6.
J Forensic Nurs ; 16(1): 36-46, 2020.
Artículo en Inglés | MEDLINE | ID: mdl-31299671

RESUMEN

INTRODUCTION: Corrections agencies are exploring ways to securely and cost-effectively increase access to high-quality, evidence-based educational programs for personnel. Technology-based instructional tools hold strong potential for continuing education. The Institute for Healthcare Improvement's Framework for Going to Full Scale was employed to guide a systematic approach. PURPOSE: The purpose of this article is to outline and describe the design and development of a media-rich interactive computer-based learning product, Enhancing Care for Aged and Dying in Prison, which addresses geriatric and end-of-life care issues in corrections. METHOD: Through an iterative process, the research team developed the computer-based educational program that included program and module-specific objectives in alignment with goals and priorities of the end users, detailed evidence-based content that was engaging and visually appealing, and assessments aimed at testing the user's knowledge. RESULTS: The Enhancing Care for Aged and Dying in Prison contains six modules, created under the careful guidance of the research team and the two advisory boards. Contents, including images and testimonials, were selected purposefully and strategically. Module objectives were developed in alignment with the goals and priorities of each module, and assessments tested user knowledge level pre/post module exposure. Completion of the training product advances the research and development necessary to further the goal of full-scale dissemination of the computer-based education. DISCUSSION/CONCLUSIONS: The goal of this program is to enhance care and improve quality of life for aged and dying inmates. Evidence-based training products are critical in preparing not only forensic nurses who work in corrections but also the broader group of correctional personnel in how to better meet the care needs of incarcerated persons.


Asunto(s)
Instrucción por Computador , Geriatría/educación , Prisioneros , Diseño de Programas Informáticos , Cuidado Terminal , Anciano , Humanos , Desarrollo de Programa , Interfaz Usuario-Computador
7.
Eur J Dent Educ ; 24(1): 5-16, 2020 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-31278815

RESUMEN

INTRODUCTION: Virtual reality-based platforms are becoming increasingly popular in education. The aim of this study was to evaluate the performance of undergraduate dental students with the introduction of the Moog Simodont dental trainer (VR) within the pre-clinical curriculum in the direct restoration module of the operative dentistry course using manual and digital methods. METHODS: Thirty-two randomly selected year 2 undergraduate students were divided into two groups: group 1, exposed to the Moog Simodont dental trainer (VR) and group 2, no exposure to VR. All students were then evaluated in carrying out a Class I preparation in a single-blinded fashion. All preparations were evaluated by three assessors using a traditional manual approach and a digital software. Statistical analysis of the data was performed using chi-square test (alpha = 0.05). RESULTS: The number of students who performed satisfactory preparations was more in group 1 (12/16), compared to group 2 (7/16). The percentage of satisfactory domains was significantly higher in group 1, compared to group 2, both in the manual evaluation (83.9% (94/112) and 59.8% (67/112) in groups 1 and 2, respectively) and in the digital evaluation (85.7% (96/112) and 55.4% (62/112) in groups 1 and 2, respectively) (P < .05). There was no significant difference between the manual and digital methods of evaluation with regard to the percentage of satisfactory or unsatisfactory preparations (P > .05). CONCLUSIONS: The use of the Moog Simodont dental trainer (VR) significantly improved the satisfactory performance of students. The virtual reality simulator may be a valuable adjunct in the undergraduate direct restorations course and for remedial student.


Asunto(s)
Estudiantes de Odontología , Realidad Virtual , Competencia Clínica , Simulación por Computador , Operatoria Dental , Educación en Odontología , Humanos , Interfaz Usuario-Computador
8.
Oral Maxillofac Surg Clin North Am ; 32(1): 1-14, 2020 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-31699582

RESUMEN

This article provides an overview of the digital workflow process for Combined orthodontics and Orthognathic surgery treatment starting from data acquisition (3-dimensional scanning, cone-beam computed tomography), data preparation, processing and Creation of a three-dimensional virtual augmented model of the head. Establishing a Proper Diagnosis and Quantification of the Dentofacial Deformity using 3D diagnostic model. Furthermore, performance of 3-dimensional Virtual orthognathic surgical treatment, and the construction of a surgical splint (via 3-dimensional printing) to allow transfer of the treatment plan to the actual patient during surgery.


Asunto(s)
Imagen Tridimensional , Ortodoncia/métodos , Cirugía Ortognática , Procedimientos Quirúrgicos Ortognáticos/métodos , Cirugía Asistida por Computador/métodos , Flujo de Trabajo , Diseño Asistido por Computador , Tomografía Computarizada de Haz Cónico , Humanos , Planificación de Atención al Paciente , Interfaz Usuario-Computador
9.
Nurs Educ Perspect ; 41(1): 61-62, 2020.
Artículo en Inglés | MEDLINE | ID: mdl-31860494

RESUMEN

Lack of clinical sites and disparate experiences contribute to the challenge for RN-to-BS nursing programs to provide sufficient leadership and quality improvement opportunities. A virtual clinical learning experience using WordPress was developed as a faculty-graduate student think tank project and implemented in an RN-BS hybrid nursing leadership course. The unfolding case study created an interactive experience to portray use of systems thinking and transformational leadership. Mann-Whitney U analysis identified no significant difference in learning outcomes. The low-cost, easy-to-develop technology counteracted limited clinical sites, allowing for learning on the go with equivalent learning outcomes.


Asunto(s)
Aprendizaje , Estudiantes de Enfermería , Interfaz Usuario-Computador , Educación en Enfermería , Humanos , Liderazgo
10.
BMC Bioinformatics ; 20(Suppl 16): 591, 2019 Dec 02.
Artículo en Inglés | MEDLINE | ID: mdl-31787090

RESUMEN

BACKGROUND: Supercomputers have become indispensable infrastructures in science and industries. In particular, most state-of-the-art scientific results utilize massively parallel supercomputers ranked in TOP500. However, their use is still limited in the bioinformatics field due to the fundamental fact that the asynchronous parallel processing service of Grid Engine is not provided on them. To encourage the use of massively parallel supercomputers in bioinformatics, we developed middleware called Virtual Grid Engine, which enables software pipelines to automatically perform their tasks as MPI programs. RESULT: We conducted basic tests to check the time required to assign jobs to workers by VGE. The results showed that the overhead of the employed algorithm was 246 microseconds and our software can manage thousands of jobs smoothly on the K computer. We also tried a practical test in the bioinformatics field. This test included two tasks, the split and BWA alignment of input FASTQ data. 25,055 nodes (2,000,440 cores) were used for this calculation and accomplished it in three hours. CONCLUSION: We considered that there were four important requirements for this kind of software, non-privilege server program, multiple job handling, dependency control, and usability. We carefully designed and checked all requirements. And this software fulfilled all the requirements and achieved good performance in a large scale analysis.


Asunto(s)
Algoritmos , Simulación por Computador , Sistemas de Computación , Interfaz Usuario-Computador , Humanos , Programas Informáticos
11.
Adv Exp Med Biol ; 1171: 105-126, 2019.
Artículo en Inglés | MEDLINE | ID: mdl-31823243

RESUMEN

The use of augmented reality (AR) has a rich history and is used in a number of fields. Its application in healthcare and anatomy education is developing considerable interest. However, although its popularity is on the rise, its use as an educational and practical tool has not been sufficiently evaluated, especially with children. Therefore, this study presents the design, development and evaluation of an educational tablet-based application with AR functionality for children. A distal radius fracture was chosen, as it is one of the more common fractures in the younger age group. Following a standardized software engineering methodology, we identified functional and non-functional requirements, creating a child-friendly tablet based AR application. This used industry standard software and incorporated three-dimensional models of a buckle fracture, object and image target marker recognition, interactivity and educational elements. In addition, we surveyed children at the Glasgow Science Centre on its usability, design and educational effectiveness. Seventy-one children completed a questionnaire (25 also underwent a short structured interview). Overall, the feedback was positive relating to entertainment value, graphic design, usability and educational scope of the application. Notably, it was shown to increase user understanding of radiology across all age groups following a trial of the application. This study shows the great potential of using digital technologies, and more particularly augmented information, in engaging future generations in science from a young age. Creation of educational materials using digital technologies, and evaluating its effectiveness, highlights the great scope novel technology could have in anatomical education and training.


Asunto(s)
Realidad Aumentada , Educación del Paciente como Asunto , Interfaz Usuario-Computador , Niño , Humanos , Educación del Paciente como Asunto/normas , Atención Dirigida al Paciente , Escocia , Programas Informáticos/normas , Encuestas y Cuestionarios
12.
BMC Bioinformatics ; 20(Suppl 23): 667, 2019 Dec 27.
Artículo en Inglés | MEDLINE | ID: mdl-31881980

RESUMEN

BACKGROUND: The main research topic in this paper is how to compare multiple biological experiments using transcriptome data, where each experiment is measured and designed to compare control and treated samples. Comparison of multiple biological experiments is usually performed in terms of the number of DEGs in an arbitrary combination of biological experiments. This process is usually facilitated with Venn diagram but there are several issues when Venn diagram is used to compare and analyze multiple experiments in terms of DEGs. First, current Venn diagram tools do not provide systematic analysis to prioritize genes. Because that current tools generally do not fully focus to prioritize genes, genes that are located in the segments in the Venn diagram (especially, intersection) is usually difficult to rank. Second, elucidating the phenotypic difference only with the lists of DEGs and expression values is challenging when the experimental designs have the combination of treatments. Experiment designs that aim to find the synergistic effect of the combination of treatments are very difficult to find without an informative system. RESULTS: We introduce Venn-diaNet, a Venn diagram based analysis framework that uses network propagation upon protein-protein interaction network to prioritizes genes from experiments that have multiple DEG lists. We suggest that the two issues can be effectively handled by ranking or prioritizing genes with segments of a Venn diagram. The user can easily compare multiple DEG lists with gene rankings, which is easy to understand and also can be coupled with additional analysis for their purposes. Our system provides a web-based interface to select seed genes in any of areas in a Venn diagram and then perform network propagation analysis to measure the influence of the selected seed genes in terms of ranked list of DEGs. CONCLUSIONS: We suggest that our system can logically guide to select seed genes without additional prior knowledge that makes us free from the seed selection of network propagation issues. We showed that Venn-diaNet can reproduce the research findings reported in the original papers that have experiments that compare two, three and eight experiments. Venn-diaNet is freely available at: http://biohealth.snu.ac.kr/software/venndianet.


Asunto(s)
Redes Reguladoras de Genes , Programas Informáticos , Animales , Perfilación de la Expresión Génica , Ontología de Genes , Internet , Ratones Noqueados , Mapas de Interacción de Proteínas , Transcriptoma , Interfaz Usuario-Computador
13.
PLoS One ; 14(12): e0226236, 2019.
Artículo en Inglés | MEDLINE | ID: mdl-31877161

RESUMEN

Event-related potentials (ERPs) represent neuronal activity in the brain elicited by external visual or auditory stimulation and are widely used in brain-computer interface (BCI) systems. The ERP responses are elicited a few milliseconds after attending to an oddball stimulus; target and non-target stimuli are repeatedly flashed, and the ERP trials are averaged over time in order to improve their decoding accuracy. To reduce this time-consuming process, previous studies have attempted to evoke stronger ERP responses by changing certain experimental parameters like color, size, or the use of a face image as a target symbol. Since these exogenous potentials can be naturally evoked by merely looking at a target symbol, the BCI system could generate unintended commands while subjects are gazing at one of the symbols in a non-intentional mental state. We approached this problem of unintended command generation by assuming that a greater effort by the user in a short-term imagery task would evoke a discriminative ERP response. Three tasks were defined: passive attention, counting, and pitch-imagery. Users were instructed to passively attend to a target symbol, or to perform a mental tally of the number of target presentations, or to perform the novel task of imagining a high-pitch tone when the target symbol was highlighted. The decoding accuracy were 71.4%, 83.5%, and 89.2% for passive attention, counting, and pitch-imagery, respectively, after the fourth averaging procedure. We found stronger deflections in the N500 component corresponding to the levels of mental effort (passive attention: -1.094 ±0.88 µV, counting: -2.226 ±0.97 µV, and pitch-imagery: -2.883 ±0.74 µV), which highly influenced the decoding accuracy. In addition, the rate of binary classification between passive attention and pitch-imagery tasks was 73.5%, which is an adequate classification rate that motivated us to propose a two-stage classification strategy wherein the target symbols are estimated in the first stage and the passive or active mental state is decoded in the second stage. In this study, we found that the ERP response and the decoding accuracy are highly influenced by the user's voluntary mental tasks. This could lead to a useful approach in practical ERP systems in two respects. Firstly, the user-voluntary tasks can be easily utilized in many different types of BCI systems, and performance enhancement is less dependent on the manipulation of the system's external, visual stimulus parameters. Secondly, we propose an ERP system that classifies the brain state as intended or unintended by considering the measurable differences between passively gazing and actively performing the pitch-imagery tasks in the EEG signal thus minimizing unintended commands to the BCI system.


Asunto(s)
Encéfalo/fisiología , Electroencefalografía/métodos , Adulto , Interfaces Cerebro-Computador , Potenciales Evocados , Femenino , Humanos , Masculino , Estimulación Luminosa , Interfaz Usuario-Computador
14.
Zhongguo Yi Liao Qi Xie Za Zhi ; 43(6): 429-431, 2019 Nov 30.
Artículo en Chino | MEDLINE | ID: mdl-31854529

RESUMEN

OBJECTIVE: To design an infusion monitor software and implement the establishment of wireless intelligent infusion monitoring system in hospital infusion area combined with the existing platform equipment in the laboratory. METHODS: On the platform of Visual Studio 2013, C# language was used to realize the software development of the upper computer, and the data from infusion monitoring equipment was received through WiFi wireless transmission technology. RESULTS: The upper computer software had a friendly user interface, and it could receive infusion data correctly and display normally. The upper computer software had alarm function and good performance. CONCLUSIONS: Infusion monitor software can realize comprehensive monitoring of multiple infusion monitors and real-time monitor of infusion process. It is easy to operate and carry which is helpful to improve the efficiency and quality of medical care.


Asunto(s)
Lenguaje , Tecnología Inalámbrica , Electrocardiografía , Diseño de Equipo , Monitoreo Fisiológico , Programas Informáticos , Interfaz Usuario-Computador
15.
BMC Bioinformatics ; 20(Suppl 25): 689, 2019 Dec 24.
Artículo en Inglés | MEDLINE | ID: mdl-31874614

RESUMEN

BACKGROUND: Accurate identification of potential interactions between drugs and protein targets is a critical step to accelerate drug discovery. Despite many relative experimental researches have been done in the past decades, detecting drug-target interactions (DTIs) remains to be extremely resource-intensive and time-consuming. Therefore, many computational approaches have been developed for predicting drug-target associations on a large scale. RESULTS: In this paper, we proposed an deep learning-based method to predict DTIs only using the information of drug structures and protein sequences. The final results showed that our method can achieve good performance with the accuracies up to 92.0%, 90.0%, 92.0% and 90.7% for the target families of enzymes, ion channels, GPCRs and nuclear receptors of our created dataset, respectively. Another dataset derived from DrugBank was used to further assess the generalization of the model, which yielded an accuracy of 0.9015 and an AUC value of 0.9557. CONCLUSION: It was elucidated that our model shows improved performance in comparison with other state-of-the-art computational methods on the common benchmark datasets. Experimental results demonstrated that our model successfully extracted more nuanced yet useful features, and therefore can be used as a practical tool to discover new drugs. AVAILABILITY: http://deeplearner.ahu.edu.cn/web/CnnDTI.htm.


Asunto(s)
Preparaciones Farmacéuticas/química , Proteínas/química , Secuencia de Aminoácidos , Área Bajo la Curva , Enzimas/química , Enzimas/metabolismo , Humanos , Preparaciones Farmacéuticas/metabolismo , Unión Proteica , Proteínas/metabolismo , Curva ROC , Interfaz Usuario-Computador
16.
BMC Bioinformatics ; 20(Suppl 25): 690, 2019 Dec 24.
Artículo en Inglés | MEDLINE | ID: mdl-31874624

RESUMEN

BACKGROUND: 2'-O-methylation (2'-O-me or Nm) is a post-transcriptional RNA methylation modified at 2'-hydroxy, which is common in mRNAs and various non-coding RNAs. Previous studies revealed the significance of Nm in multiple biological processes. With Nm getting more and more attention, a revolutionary technique termed Nm-seq, was developed to profile Nm sites mainly in mRNA with single nucleotide resolution and high sensitivity. In a recent work, supported by the Nm-seq data, we have reported a method in silico for predicting Nm sites, which relies on nucleotide sequence information, and established an online server named NmSEER. More recently, a more confident dataset produced by refined Nm-seq was available. Therefore, in this work, we redesigned the prediction model to achieve a more robust performance on the new data. RESULTS: We redesigned the prediction model from two perspectives, including machine learning algorithm and multi-encoding scheme combination. With optimization by 5-fold cross-validation tests and evaluation by independent test respectively, random forest was selected as the most robust algorithm. Meanwhile, one-hot encoding, together with position-specific dinucleotide sequence profile and K-nucleotide frequency encoding were collectively applied to build the final predictor. CONCLUSIONS: The predictor of updated version, named NmSEER V2.0, achieves an accurate prediction performance (AUROC = 0.862) and has been settled into a brand-new server, which is available at http://www.rnanut.net/nmseer-v2/ for free.


Asunto(s)
ARN/metabolismo , Interfaz Usuario-Computador , Área Bajo la Curva , Aprendizaje Automático , Metilación , ARN/genética , Procesamiento Postranscripcional del ARN , Curva ROC
17.
Forensic Sci Int ; 305: 110006, 2019 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-31706054

RESUMEN

Virtual reality is recently finding its way in forensic work. The required 3D data is nowadays a standard dataset available in many cases, from homicide to traffic collisions, including not only data from the scene but also of weaponry and involved persons. Current investigations use these 3D data to replicated the incident and as discussion base for forensic personal. However, modifying the scene on a 2D viewport is often cumbersome due to the loss of the third dimension. Also to perform the modifications on the scene a 3D operator is often required. Virtual reality might improve this step by its easy use and by visualising the third dimension. This publication presents a variety of tools which can be used in forensic investigations. Additionally to the tools, examples of forensic use of these tools will be presented, showing that already a small number of tools support a variety of forensic applications.


Asunto(s)
Ciencias Forenses/métodos , Realidad Virtual , Computadores , Crimen , Humanos , Imagen Tridimensional , Programas Informáticos , Interfaz Usuario-Computador
18.
Hum Mov Sci ; 68: 102526, 2019 Dec.
Artículo en Inglés | MEDLINE | ID: mdl-31669803

RESUMEN

We translated a well-established laboratory paradigm to study sensory integration into a Head-Mounted-Display (HMD). In the current study, a group of 23 individuals with unilateral vestibular dysfunction and 16 age-matched controls observed moving spheres projected from the Oculus Rift. We confirmed increased visual weighting with an unstable surface and decreased visual weighting (i.e., reweighting) with increased visual amplitude. We did not observe significant differences in gains and phases between individuals with vestibular dysfunction and age-matched controls. The vestibular group increased sway in mid and high frequencies significantly more than controls with the change in surface or visual amplitude. Mild visual perturbations within HMDs carry the potential to become a useful portable assessment of postural control in individuals with vestibular disorders.


Asunto(s)
Balance Postural/fisiología , Enfermedades Vestibulares/fisiopatología , Adulto , Anciano , Estudios de Casos y Controles , Femenino , Humanos , Masculino , Persona de Mediana Edad , Interfaz Usuario-Computador , Vestíbulo del Laberinto/fisiopatología , Realidad Virtual
20.
BMC Bioinformatics ; 20(1): 561, 2019 Nov 08.
Artículo en Inglés | MEDLINE | ID: mdl-31703549

RESUMEN

BACKGROUND: The MG-RAST API provides search capabilities and delivers organism and function data as well as raw or annotated sequence data via the web interface and its RESTful API. For casual users, however, RESTful APIs are hard to learn and work with. RESULTS: We created the graphical MG-RAST API explorer to help researchers more easily build and export API queries; understand the data abstractions and indices available in MG-RAST; and use the results presented in-browser for exploration, development, and debugging. CONCLUSIONS: The API explorer lowers the barrier to entry for occasional or first-time MG-RAST API users.


Asunto(s)
Motor de Búsqueda , Programas Informáticos , Interfaz Usuario-Computador , Archaea/genética , Secuencia de Bases , Bases de Datos Genéticas , Internet
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