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1.
Sensors (Basel) ; 24(13)2024 Jun 30.
Artículo en Inglés | MEDLINE | ID: mdl-39001047

RESUMEN

The Broad Learning System (BLS) has demonstrated strong performance across a variety of problems. However, BLS based on the Minimum Mean Square Error (MMSE) criterion is highly sensitive to label noise. To enhance the robustness of BLS in environments with label noise, a function called Logarithm Kernel (LK) is designed to reweight the samples for outputting weights during the training of BLS in order to construct a Logarithm Kernel-based BLS (L-BLS) in this paper. Additionally, for image databases with numerous features, a Mixture Autoencoder (MAE) is designed to construct more representative feature nodes of BLS in complex label noise environments. For the MAE, two corresponding versions of BLS, MAEBLS, and L-MAEBLS were also developed. The extensive experiments validate the robustness and effectiveness of the proposed L-BLS, and MAE can provide more representative feature nodes for the corresponding version of BLS.

2.
Sci Rep ; 14(1): 13000, 2024 Jun 06.
Artículo en Inglés | MEDLINE | ID: mdl-38844819

RESUMEN

The Marine Predator Algorithm (MPA) has unique advantages as an important branch of population-based algorithms. However, it emerges more disadvantages gradually, such as traps to local optima, insufficient diversity, and premature convergence, when dealing with complex problems in practical industrial engineering design applications. In response to these limitations, this paper proposes a novel Improved Marine Predator Algorithm (IMPA). By introducing an adaptive weight adjustment strategy and a dynamic social learning mechanism, this study significantly improves the encounter frequency and efficiency between predators and preys in marine ecosystems. The performance of the IMPA was evaluated through benchmark functions, CEC2021 suite problems, and engineering design problems, including welded beam design, tension/compression spring design, pressure vessel design, and three-bar design. The results indicate that the IMPA has achieved significant success in the optimization process over other methods, exhibiting excellent performance in both solving optimal parameter solutions and optimizing objective function values. The IMPA performs well in terms of accuracy and robustness, which also proves its efficiency in successfully solving complex industrial engineering design problems.

3.
Sensors (Basel) ; 24(10)2024 May 17.
Artículo en Inglés | MEDLINE | ID: mdl-38794035

RESUMEN

When resource demand increases and decreases rapidly, container clusters in the cloud environment need to respond to the number of containers in a timely manner to ensure service quality. Resource load prediction is a prominent challenge issue with the widespread adoption of cloud computing. A novel cloud computing load prediction method has been proposed, the Double-channel residual Self-attention Temporal convolutional Network with Weight adaptive updating (DSTNW), in order to make the response of the container cluster more rapid and accurate. A Double-channel Temporal Convolution Network model (DTN) has been developed to capture long-term sequence dependencies and enhance feature extraction capabilities when the model handles long load sequences. Double-channel dilated causal convolution has been adopted to replace the single-channel dilated causal convolution in the DTN. A residual temporal self-attention mechanism (SM) has been proposed to improve the performance of the network and focus on features with significant contributions from the DTN. DTN and SM jointly constitute a dual-channel residual self-attention temporal convolutional network (DSTN). In addition, by evaluating the accuracy aspects of single and stacked DSTNs, an adaptive weight strategy has been proposed to assign corresponding weights for the single and stacked DSTNs, respectively. The experimental results highlight that the developed method has outstanding prediction performance for cloud computing in comparison with some state-of-the-art methods. The proposed method achieved an average improvement of 24.16% and 30.48% on the Container dataset and Google dataset, respectively.

4.
Gigascience ; 13(1)2024 01 02.
Artículo en Inglés | MEDLINE | ID: mdl-38373746

RESUMEN

BACKGROUND: The emergence of high-resolved spatial transcriptomics (ST) has facilitated the research of novel methods to investigate biological development, organism growth, and other complex biological processes. However, high-resolved and whole transcriptomics ST datasets require customized imputation methods to improve the signal-to-noise ratio and the data quality. FINDINGS: We propose an efficient and adaptive Gaussian smoothing (EAGS) imputation method for high-resolved ST. The adaptive 2-factor smoothing of EAGS creates patterns based on the spatial and expression information of the cells, creates adaptive weights for the smoothing of cells in the same pattern, and then utilizes the weights to restore the gene expression profiles. We assessed the performance and efficiency of EAGS using simulated and high-resolved ST datasets of mouse brain and olfactory bulb. CONCLUSIONS: Compared with other competitive methods, EAGS shows higher clustering accuracy, better biological interpretations, and significantly reduced computational consumption.


Asunto(s)
Imagen por Resonancia Magnética , Transcriptoma , Animales , Ratones , Imagen por Resonancia Magnética/métodos , Perfilación de la Expresión Génica , Distribución Normal , Relación Señal-Ruido
5.
J Biomed Opt ; 28(8): 085003, 2023 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-37655213

RESUMEN

Significance: Imaging photoplethysmography (iPPG) is a non-contact measuring technology for several physiological parameters reflecting personal health status without a special sensor. However, the pulse signal obtained using the iPPG usually is contaminated by various noises, and the intensity of the interesting pulse signal is relatively weak compared to the noises, emphasizing the necessity of obtaining high-quality pulse signals to measure physiological parameters correctly. Aim: Various regions of the face harbor distinct pulse information. We propose a spatial averaging method based on adaptive weights, which can obtain high-quality pulse signals by applying different weights to facial sub-regions of interest (sub-ROIs; sROIs). Approach: First, the facial ROI is divided into seven sROIs and the coarse heart rate (HR) is calculated from them. Next, the signal-to-noise ratio (SNR) of the raw signal obtained from each sROI is calculated using the coarse HR, and then a high-quality pulse signal is obtained by assigning positive or negative weights to each sROI based on the SNRs. Results: We compare our method with others through the quality analysis of the obtained pulse signals using the self-collected database and the public database PURE. The comparison results show that the proposed method can provide a better pulse signal compared to other methods under various resolutions and states. Conclusions: This proposed method can obtain the pulse signal with better quality, which is helpful to accurately measure physiological parameters, such as HR and HR variability.

6.
BMC Bioinformatics ; 24(1): 315, 2023 Aug 19.
Artículo en Inglés | MEDLINE | ID: mdl-37598159

RESUMEN

BACKGROUND: Two types of non-invasive, radiation-free, and inexpensive imaging technologies that are widely employed in medical applications are ultrasound (US) and infrared thermography (IRT). The ultrasound image obtained by ultrasound imaging primarily expresses the size, shape, contour boundary, echo, and other morphological information of the lesion, while the infrared thermal image obtained by infrared thermography imaging primarily describes its thermodynamic function information. Although distinguishing between benign and malignant thyroid nodules requires both morphological and functional information, present deep learning models are only based on US images, making it possible that some malignant nodules with insignificant morphological changes but significant functional changes will go undetected. RESULTS: Given the US and IRT images present thyroid nodules through distinct modalities, we proposed an Adaptive multi-modal Hybrid (AmmH) classification model that can leverage the amalgamation of these two image types to achieve superior classification performance. The AmmH approach involves the construction of a hybrid single-modal encoder module for each modal data, which facilitates the extraction of both local and global features by integrating a CNN module and a Transformer module. The extracted features from the two modalities are then weighted adaptively using an adaptive modality-weight generation network and fused using an adaptive cross-modal encoder module. The fused features are subsequently utilized for the classification of thyroid nodules through the use of MLP. On the collected dataset, our AmmH model respectively achieved 97.17% and 97.38% of F1 and F2 scores, which significantly outperformed the single-modal models. The results of four ablation experiments further show the superiority of our proposed method. CONCLUSIONS: The proposed multi-modal model extracts features from various modal images, thereby enhancing the comprehensiveness of thyroid nodules descriptions. The adaptive modality-weight generation network enables adaptive attention to different modalities, facilitating the fusion of features using adaptive weights through the adaptive cross-modal encoder. Consequently, the model has demonstrated promising classification performance, indicating its potential as a non-invasive, radiation-free, and cost-effective screening tool for distinguishing between benign and malignant thyroid nodules. The source code is available at https://github.com/wuliZN2020/AmmH .


Asunto(s)
Nódulo Tiroideo , Humanos , Nódulo Tiroideo/diagnóstico por imagen , Ultrasonografía , Suministros de Energía Eléctrica , Programas Informáticos , Termodinámica
7.
Water Res ; 233: 119759, 2023 Apr 15.
Artículo en Inglés | MEDLINE | ID: mdl-36841169

RESUMEN

Cost-effective runoff control scheme drafting involves localization, multi-sector coordination, and configuration of multifunctional infrastructures. Numerous independent variables, parameters, weights, and objectives make runoff control optimization quantitatively arduous. This study innovatively proposed a multi-objective optimization methodology for green-gray coupled runoff control infrastructure adapting spatial heterogeneity of natural endowment and urban development. The quantitative methods of multi-objective evaluation, hydrological feature partition, and pressure-adapted multi-objective weight assignment were proposed. Remote sensing inversion of water quality, hydrological model simulation (using SWAT and SWMM software), landscape pattern index calculation, life cycle cost (LCC), life cycle assessment (LCA) on ecological impact, and NSGA-II optimization algorithm were applied. Wuhan, the most water-sensitive city in China, was studied as a case. Runoff control function (RCF), capital investment (CI), and ecological return on investment (EROI) served as optimized objectives. High, medium, and low built-up regions in Wuhan urban development planning district were extracted by topographic factors and landscape patterns, which comprised 28, 34, and 38% of the case area, respectively. Three corresponding hydrological models were then built to illustrate distinct runoff control cost-efficiency in each region. Pressure distributions on runoff control, economic constraints, and ecological resource scarcity were quantitatively evaluated. And four pressure zones were clustered, which occupied 36, 29, 16, and 19% of the case area, respectively. Then the zonal weighted optimization decision-making matrix (with 3 hydrological models and 5 wt) was established by overlaying the pressure zone and built-up zone. In high, medium, and low built-up regions, optimized solutions reduced annual runoff volume by 86, 82%, and 77%The average runoff investments per square meter of impervious underlying surface in high, medium, and low built-up regions were 34.2, 18.7, and 7.9 RMB yuan, respectively. Medium and low built-up regions may only need 55 and 23% of the high built-up region for the unitary impervious underlying surface to balance runoff control and ecological benefits. Runoff control and financial utilization efficiency enhance with hydrological differentiation zones. Thus, the optimization solutions are zonal adaptive, refined, comparable, replicable, and implementable.


Asunto(s)
Administración Financiera , Remodelación Urbana , Lluvia , Ciudades , China , Movimientos del Agua
8.
Brief Bioinform ; 23(6)2022 11 19.
Artículo en Inglés | MEDLINE | ID: mdl-36168938

RESUMEN

More and more evidence indicates that the dysregulations of microRNAs (miRNAs) lead to diseases through various kinds of underlying mechanisms. Identifying the multiple types of disease-related miRNAs plays an important role in studying the molecular mechanism of miRNAs in diseases. Moreover, compared with traditional biological experiments, computational models are time-saving and cost-minimized. However, most tensor-based computational models still face three main challenges: (i) easy to fall into bad local minima; (ii) preservation of high-order relations; (iii) false-negative samples. To this end, we propose a novel tensor completion framework integrating self-paced learning, hypergraph regularization and adaptive weight tensor into nonnegative tensor factorization, called SPLDHyperAWNTF, for the discovery of potential multiple types of miRNA-disease associations. We first combine self-paced learning with nonnegative tensor factorization to effectively alleviate the model from falling into bad local minima. Then, hypergraphs for miRNAs and diseases are constructed, and hypergraph regularization is used to preserve the high-order complex relations of these hypergraphs. Finally, we innovatively introduce adaptive weight tensor, which can effectively alleviate the impact of false-negative samples on the prediction performance. The average results of 5-fold and 10-fold cross-validation on four datasets show that SPLDHyperAWNTF can achieve better prediction performance than baseline models in terms of Top-1 precision, Top-1 recall and Top-1 F1. Furthermore, we implement case studies to further evaluate the accuracy of SPLDHyperAWNTF. As a result, 98 (MDAv2.0) and 98 (MDAv2.0-2) of top-100 are confirmed by HMDDv3.2 dataset. Moreover, the results of enrichment analysis illustrate that unconfirmed potential associations have biological significance.


Asunto(s)
MicroARNs , Humanos , MicroARNs/genética , Biología Computacional/métodos , Algoritmos , Predisposición Genética a la Enfermedad
9.
Sensors (Basel) ; 22(14)2022 Jul 13.
Artículo en Inglés | MEDLINE | ID: mdl-35890912

RESUMEN

In the Unmanned Aerial Vehicle (UAV) system, finding a flight planning path with low cost and fast search speed is an important problem. However, in the complex three-dimensional (3D) flight environment, the planning effect of many algorithms is not ideal. In order to improve its performance, this paper proposes a UAV path planning algorithm based on improved Harris Hawks Optimization (HHO). A 3D mission space model and a flight path cost function are first established to transform the path planning problem into a multidimensional function optimization problem. HHO is then improved for path planning, where the Cauchy mutation strategy and adaptive weight are introduced in the exploration process in order to increase the population diversity, expand the search space and improve the search ability. In addition, in order to reduce the possibility of falling into local extremum, the Sine-cosine Algorithm (SCA) is used and its oscillation characteristics are considered to gradually converge to the optimal solution. The simulation results show that the proposed algorithm has high optimization accuracy, convergence speed and robustness, and it can generate a more optimized path planning result for UAVs.

10.
Sensors (Basel) ; 22(13)2022 Jun 30.
Artículo en Inglés | MEDLINE | ID: mdl-35808466

RESUMEN

In anchor-free object detection, the center regions of bounding boxes are often highly weighted to enhance detection quality. However, the central area may become less significant in some situations. In this paper, we propose a novel dual attention-based approach for the adaptive weight assignment within bounding boxes. The proposed improved dual attention mechanism allows us to thoroughly untie spatial and channel attention and resolve the confusion issue, thus it becomes easier to obtain the proper attention weights. Specifically, we build an end-to-end network consisting of backbone, feature pyramid, adaptive weight assignment based on dual attention, regression, and classification. In the adaptive weight assignment module based on dual attention, a parallel framework with the depthwise convolution for spatial attention and the 1D convolution for channel attention is applied. The depthwise convolution, instead of standard convolution, helps prevent the interference between spatial and channel attention. The 1D convolution, instead of fully connected layer, is experimentally proved to be both efficient and effective. With the adaptive and proper attention, the correctness of object detection can be further improved. On public MS-COCO dataset, our approach obtains an average precision of 52.7%, achieving a great increment compared with other anchor-free object detectors.


Asunto(s)
Redes Neurales de la Computación
11.
Environ Sci Pollut Res Int ; 29(50): 75936-75954, 2022 Oct.
Artículo en Inglés | MEDLINE | ID: mdl-35665453

RESUMEN

The water quality of Hong Kong's four water control zones (Tolo Harbour and Channel, Port Shelter, Victoria Harbour, and Junk Bay) is of vital importance and has attracted much attention. This study aims to more objectively and comprehensively assess the water quality and its health impact based on the four-year monitoring data of 21 parameters collected from four zones. First, physicochemical characteristics of the water system were investigated based on multivariate statistical approaches, including Kruskal-Wallis test, hierarchical cluster analysis, and Mann-Kendall test. Then, water quality levels over space and time and the element sources were analyzed using adaptive-weight water quality index (AWQI) method, and factor analysis, respectively. Finally, the potential harm of trace elements for humankind was identified based on the health risk assessment model. The results revealed that (1) the values of more than half of the water quality parameters exhibited significant interannual changes, and the values of all parameters distinctly varied over space; (2) The water quality status in four water control zones showed a steady and long-term improvement trend from 2016 to 2019; (3) The sources of pollution elements impacting water quality status were related to the comprehensive influence of human activities and natural processes; (4) The carcinogenic risks of all trace elements were negligible or acceptable, while Mn and As may cause noncarcinogenic harm to humankind.


Asunto(s)
Oligoelementos , Contaminantes Químicos del Agua , Monitoreo del Ambiente/métodos , Hong Kong , Humanos , Medición de Riesgo , Ríos , Oligoelementos/análisis , Contaminantes Químicos del Agua/análisis , Calidad del Agua
12.
Sensors (Basel) ; 22(12)2022 Jun 10.
Artículo en Inglés | MEDLINE | ID: mdl-35746178

RESUMEN

The single batch normalization (BN) method is commonly used in the instance segmentation algorithms. The batch size is concerned with some drawbacks. A too small sample batch size leads to a sharp drop in accuracy, but a too large batch may result in the memory overflow of graphic processing units (GPU). These problems make BN not feasible to some instance segmentation tasks with inappropriate batch sizes. The self-adaptive normalization (SN) method, with an adaptive weight loss layer, shows good performance in instance segmentation algorithms, such as the YOLACT. However, the parameter averaging mechanism in the SN method is prone to problems in the weight learning and assignment process. In response to such a problem, the paper proposes to replace the single BN with an adaptive weight loss layer in SN models, based on which a weight learning method is developed. The proposed method increases the input feature expression ability of the subsequent layers. By building a Pytorch deep learning framework, the proposed method is validated in the MS-COCO data set and Autonomous Driving Cityscapes data set. The experimental results prove that the proposed method is effective in processing samples independent from the batch size. The stable accuracy for all kinds of target segmentation is achieved, and the overall loss value is significantly reduced at the same time. The convergence speed of the network is also improved.

13.
Int J Comput Assist Radiol Surg ; 17(3): 601-608, 2022 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-34455536

RESUMEN

PURPOSE: The inverse planning simulated annealing (IPSA) algorithm has shown good results in cancer surgical treatment planning. However, an adaptive approach has not well been proposed for different shapes and sizes of tumors. The purpose of this study was to propose an adaptive, efficient and safe algorithm to get high-quality treatment dose planning, which is presented for pancreatic cancer. METHODS: An algorithm employs an optimized IPSA and an adaptive process for adjusting the weight of organs at risk (OAR) and tumor. The algorithm, which was combined with ant colony optimization, was further optimized to reduce the number of needles. It could meet the clinical dose objectives within the tumors, reduce the dose distribution within the OAR and minimize the number of needles. Ten clinical cases were chosen randomly from patients, previously successfully treated in clinic to test our method. The algorithm was validated against clinical cases, using clinically relevant dose parameters. RESULTS: The results were compared with clinical results in ten cases, indicating that the dose distribution within the tumor meets the clinical dose objectives. The dose received by OAR had been greatly reduced, and the number of needles could be reduced by about 50%. It was a significant improvement over the clinical treatment planning. CONCLUSIONS: In this paper, we have devised an algorithm to optimize the treatment planning in brachytherapy. The method in this paper could meet the clinical dose objectives and reduce the difficulty of operation. The results were clinically acceptable. This algorithm is also applicable to other cancers such as lung cancer.


Asunto(s)
Braquiterapia , Algoritmos , Braquiterapia/métodos , Humanos , Dosificación Radioterapéutica , Planificación de la Radioterapia Asistida por Computador/métodos , Estudios Retrospectivos
14.
Int Stat Rev ; 2022 Oct 19.
Artículo en Inglés | MEDLINE | ID: mdl-36710888

RESUMEN

The fused lasso signal approximator (FLSA) is a smoothing procedure for noisy observations that uses fused lasso penalty on unobserved mean levels to find sparse signal blocks. Several path algorithms have been developed to obtain the whole solution path of the FLSA. However, it is known that the FLSA has model selection inconsistency when the underlying signals have a stair-case block, where three consecutive signal blocks are either strictly increasing or decreasing. Modified path algorithms for the FLSA have been proposed to guarantee model selection consistency regardless of the stair-case block. In this paper, we provide a comprehensive review of the path algorithms for the FLSA and prove the properties of the recently modified path algorithms' hitting times. Specifically, we reinterpret the modified path algorithm as the path algorithm for local FLSA problems and reveal the condition that the hitting time for the fusion of the modified path algorithm is not monotone in a tuning parameter. To recover the monotonicity of the solution path, we propose a pathwise adaptive FLSA having monotonicity with similar performance as the modified solution path algorithm. Finally, we apply the proposed method to the number of daily-confirmed cases of COVID-19 in Korea to identify the change points of its spread.

15.
ISA Trans ; 116: 139-166, 2021 Oct.
Artículo en Inglés | MEDLINE | ID: mdl-33551129

RESUMEN

Parameters for defining photovoltaic models using measured voltage-current​ characteristics are essential for simulation, control, and evaluation of photovoltaic-based systems. This paper proposes an enhanced chaotic JAYA algorithm to classify the parameters of various photovoltaic models, such as the single-diode and double-diode models, accurately and reliably. The proposed algorithm introduces a self-adaptive weight to regulate the trend to reach the optimal solution and avoid the worst solution in various phases of the search space. The self-adaptive weight capability also allows the proposed technique to reach the best solution at the earliest phase, and later, the local search process starts, which also increase the ability to explore. A three different chaotic process, including sine, logistics and tent map, is proposed to optimize the consistency of each generation's best solution. The proposed algorithm and its variants proposed are used to solve the parameter estimation problem of various PV models. To show the proficiency of the suggested algorithm and its variants, an extensive simulation is carried out using MATLAB/Simulink software. Two statistical tests are conducted and compared with the latest techniques for validating the performance of the suggested algorithm and its variants. Comprehensive analysis and experimental results display that the suggested algorithm can achieve highly competitive efficiency in terms of accuracy and reliability compared to other algorithms in the literature. This research will be backed up with extra online service and guidance for the paper's source code at https://premkumarmanoharan.wixsite.com/mysite.

16.
ISA Trans ; 112: 176-185, 2021 Jun.
Artículo en Inglés | MEDLINE | ID: mdl-33349454

RESUMEN

Path planning is a basic function for autonomous vehicle (AV). However, it is difficult to adapt to different velocities and different types of obstacles including dynamic obstacle and static obstacle (such as road boundary) for AV. To solve the problem of path planning under different velocities and different types of obstacles, a two potential fields fused adaptive path planning system (TPFF-APPS) which includes two parts, a potential field fusion controller and an adaptive weight assignment unit, is presented in this work. In the potential field fusion controller, a novel potential velocity field is built by velocity information and fused with a traditional artificial potential field for adapting various velocities. The adaptive weight assignment unit is designed to distribute adaptively the weights of two potential fields for adapting different types of obstacles at the same time, including road boundary and dynamic obstacles. The simulation is carried on the Carsim-Matlab co-simulation platform, and the simulation results indicate that the proposed TPFF-APPS has excellent performance for path planning adapting to different velocities and different types of obstacles.

17.
Pharm Stat ; 19(3): 315-325, 2020 05.
Artículo en Inglés | MEDLINE | ID: mdl-31886602

RESUMEN

The design of a clinical trial is often complicated by the multi-systemic nature of the disease; a single endpoint often cannot capture the spectrum of potential therapeutic benefits. Multi-domain outcomes which take into account patient heterogeneity of disease presentation through measurements of multiple symptom/functional domains are an attractive alternative to a single endpoint. A multi-domain test with adaptive weights is proposed to synthesize the evidence of treatment efficacy over numerous disease domains. The test is a weighted sum of domain-specific test statistics with weights selected adaptively via a data-driven algorithm. The null distribution of the test statistic is constructed empirically through resampling and does not require estimation of the covariance structure of domain-specific test statistics. Simulations show that the proposed test controls the type I error rate, and has increased power over other methods such as the O'Brien and Wei-Lachin tests in scenarios reflective of clinical trial settings. Data from a clinical trial in a rare lysosomal storage disorder were used to illustrate the properties of the proposed test. As a strategy of combining marginal test statistics, the proposed test is flexible and readily applicable to a variety of clinical trial scenarios.


Asunto(s)
Determinación de Punto Final/estadística & datos numéricos , Ensayos Clínicos Controlados Aleatorios como Asunto/estadística & datos numéricos , Proyectos de Investigación/estadística & datos numéricos , Interpretación Estadística de Datos , Método Doble Ciego , Estado Funcional , Humanos , Modelos Estadísticos , Mucopolisacaridosis I/diagnóstico , Mucopolisacaridosis I/fisiopatología , Mucopolisacaridosis I/terapia , Recuperación de la Función , Resultado del Tratamiento
18.
J Dent Dent Med ; 3(4)2020 May.
Artículo en Inglés | MEDLINE | ID: mdl-34622142

RESUMEN

OBJECTIVE: Dental caries is a multifactorial disease with high prevalence in both children and adults. Recent genome-wide association studies (GWASs) have revealed that genetic factors play an important role in caries incidence. However, existing methods are not sufficient to identify caries-associated genes, due to the complex correlation structure of caries GWAS data, and lack of appropriate summarization at the gene level. This paper attempts to address that by analyzing data from the Gene, Environment Association Studies (GENEVA) consortium. METHODS: We investigated gene-based genetic associations for dental caries based on genome-wide data derived from the GENEVA database, with adjustment to covariates, linkage disequilibrium among single-nucleotide polymorphisms, and family relations, in sampled individuals. RESULTS: Several suggestive genes were identified, in which some of them have been previously found to have potential biological functions on cariogenesis. CONCLUSIONS: By comparing the gene sets identified from gene-based and SNP-based association testing methods, we found a non-negligible overlap, which indicates that our gene-based analysis can provide substantial supplement to the traditional GWAS analysis.

19.
Med Phys ; 46(11): 4923-4939, 2019 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-31276217

RESUMEN

PURPOSE: Respiration causes the deformation and sliding motion of the soft tissues, and affects the accuracy of the assessment of minimally invasive abdominal surgery. Nonrigid registration is used to eliminate the effects of respiration for the assessment. Because the soft tissues with high water content are volume preserving during deformation, incompressibility has to be considered when tracking soft tissues for nonrigid registration. The purpose of the study was to develop an incompressible nonrigid registration for tracking deformable soft tissues with sliding motion. METHODS: The nonrigid registration framework proposed in the present study includes two main steps: (a) The solution in the subspace of diffeomorphisms is searched and encoded to stationary velocity field in the log domain. (b) The divergence-free component and harmonic remainder are extracted by Fourier-based Helmholtz-Hodge decomposition (FHHD) and further integrated by an adaptive weight to simultaneously retain the incompressibility of deformation and compensate the sliding motion. The method was evaluated on 11 groups of synthetic datasets and five groups of clinical images. Registration accuracy is evaluated by using four quantitative measures, including mean surface distance (MSD), Hausdorff distance (HD), mean corresponding distance (MCD), and Dice similarity coefficient (DSC). Incompressibility is evaluated by using two quantitative measures, including relative volume change (RVC) and Jacobian determinant (J). RESULTS: Compared with three state-of-the-art nonrigid registration methods, the proposed method shows an advantage in handling the incompressible deformation of images with large sliding motion. The lowest (MSD, 0.631 mm), (HD, 6.000 mm), and (MCD, 3.555 mm) and the highest (DSC, 0.970) are obtained proving the high registration accuracy with sliding motion compensation of the proposed method. The (RVC, 0.006) and Jacobian determinant (J, 1.008 ± 0.070) are nearly close to 0 and 1, respectively, showing the strong incompressibility of the proposed method. The proposed method improves registration accuracy in nearly all cases, which maintains the incompressibility of tissue transformation while simultaneously compensating the sliding motion on clinical datasets. CONCLUSIONS: The proposed method improves the registration accuracy of incompressible tissues when dealing with large sliding motion, and thus has the potential to improve current minimally invasive abdominal surgery.


Asunto(s)
Procesamiento de Imagen Asistido por Computador/métodos , Movimiento , Algoritmos , Artefactos , Fenómenos Biomecánicos , Humanos , Respiración , Tomografía Computarizada por Rayos X
20.
Ann Appl Stat ; 12(3): 1558-1582, 2018 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-30214655

RESUMEN

High-throughput sequencing has often been used to screen samples from pedigrees or with population structure, producing genotype data with complex correlations rendered from both familial relation and linkage disequilibrium. With such data, it is critical to account for these genotypic correlations when assessing the contribution of variants by gene or pathway. Recognizing the limitations of existing association testing methods, we propose Adaptive-weight Burden Test (ABT), a retrospective, mixed-model test for genetic association of quantitative traits on genotype data with complex correlations. This method makes full use of genotypic correlations across both samples and variants, and adopts "data-driven" weights to improve power. We derive the ABT statistic and its explicit distribution under the null hypothesis, and demonstrate through simulation studies that it is generally more powerful than the fixed-weight burden test and family-based SKAT in various scenarios, controlling for the type I error rate. Further investigation reveals the connection of ABT with kernel tests, as well as the adaptability of its weights to the direction of genetic effects. The application of ABT is illustrated by a whole genome analysis of genes with common and rare variants associated with fasting glucose from the NHLBI "Grand Opportunity" Exome Sequencing Project.

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