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Kernel density

Chaoshu Zhang, Zhiqiang Zhou, Hongjun Yong, Xiaochong Zhang, Zhuanfang Hao, Fangjun Zhang, Mingshun Li, Degui Zhang, Xinhai Li, Zhenhua Wang, Jianfeng Weng
Using combined linkage and association mapping, 26 stable QTL and six stable SNPs were detected across multiple environments for eight ear and grain morphological traits in maize. One QTL, PKS2, might play an important role in maize yield improvement. In the present study, one bi-parental population and an association panel were used to identify quantitative trait loci (QTL) for eight ear and grain morphological traits. A total of 108 QTL related to these traits were detected across four environments using an ultra-high density bin map constructed using recombinant inbred lines (RILs) derived from a cross between Ye478 and Qi319, and 26 QTL were identified in more than two environments...
February 18, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
Chenhui Li, George Baciu, Han Yu
Interactive visualization of streaming points for real-time scatterplots and linear blending of correlation patterns is increasingly becoming the dominant mode of visual analytics for both big data and streaming data from active sensors and broadcasting media. To better visualize and interact with inter-stream patterns, it is generally necessary to smooth out gaps or distortions in the streaming data. Previous approaches either animate the points directly or present a sampled static heatmap. We propose a new approach, called StreamMap, to smoothly blend high-density streaming points and create a visual flow that emphasizes the density pattern distributions...
February 13, 2017: IEEE Transactions on Visualization and Computer Graphics
Huai Ding, Huijun Jiang, Nanrong Zhao, Zhonghuai Hou
We use a kinetic mode-coupling theory (MCT) combining with generalized Langevin equation (GLE) to study the diffusion and conformational dynamics of a bead-spring Rouse chain (RC) dissolved in porous media. The media contains fluid particles and immobile matrix ones wherein the latter leads to the lack of translational invariance. The friction kernel ζ(t) used in the GLE can be obtained directly by adopting a simple density-functional approach in which the density correlators calculated by MCT equations of porous media serve as inputs...
January 2017: Physical Review. E
Boris Kauhl, Jonas Pieper, Jürgen Schweikart, Andrea Keste, Marita Moskwyn
Understanding which population groups in which locations are at higher risk for type 2 diabetes mellitus (T2DM) allows efficient and cost-effective interventions targeting these risk-populations in great need in specific locations. The goal of this study was to analyze the spatial distribution of T2DM and to identify the location-specific, population-based risk factors using global and local spatial regression models. To display the spatial heterogeneity of T2DM, bivariate kernel density estimation was applied...
February 16, 2017: Das Gesundheitswesen
Ganesh Hegde, R Chris Bowen
Large scale Density Functional Theory (DFT) based electronic structure calculations are highly time consuming and scale poorly with system size. While semi-empirical approximations to DFT result in a reduction in computational time versus ab initio DFT, creating such approximations involves significant manual intervention and is highly inefficient for high-throughput electronic structure screening calculations. In this letter, we propose the use of machine-learning for prediction of DFT Hamiltonians. Using suitable representations of atomic neighborhoods and Kernel Ridge Regression, we show that an accurate and transferable prediction of DFT Hamiltonians for a variety of material environments can be achieved...
February 15, 2017: Scientific Reports
T M Bertol, D L Zanotto, A Coldebella, J V Ludke
Three experiments were conducted with the aim of developing and validating an equation to predict the ME of corn for pigs from its chemical composition, physical characteristics and particle size. Exp. 1: Eight lots of corn were ground in a hammer mill, using 5 sieves with different screen opening sizes, generating 40 batches of ground corn. The chemical composition (DM, CP, ether extract, crude fiber, ADF, NDF, and ash) and physical characteristics (bulk density- BD and 1,000-kernel weight- TKW) were determined in the 8 lots and geometric mean diameter (GMD) and N-corrected ME (AMEn) were determined in the 40 batches of corn...
January 2017: Journal of Animal Science
James L B Robertson, Eleanor Martin, Ben Cox, Bradley Treeby
High intensity transcranial focused ultrasound is an FDA approved treatment for essential tremor, while low-intensity applications such as neurostimulation and opening the blood brain barrier are under active research. Simulations of transcranial ultrasound propagation are used both for focusing through the skull, and predicting intracranial fields. Maps of the skull acoustic properties are necessary for accurate simulations, and can be derived from medical images using a variety of methods. The skull maps range from segmented, homogeneous models, to fully heterogeneous models derived from medical image intensity...
February 6, 2017: Physics in Medicine and Biology
Abdulhamid Chaikh, Nicolas Docquière, Pierre-Yves Bondiau, Jacques Balosso
BACKGROUND: The equivalent uniform dose (EUD) radiobiological model can be applied for lung cancer treatment plans to estimate the tumor control probability (TCP) and the normal tissue complication probability (NTCP) using different dose calculation models. Then, based on the different calculated doses, the quality adjusted life years (QALY) score can be assessed versus the uncomplicated tumor control probability (UTCP) concept in order to predict the overall outcome of the different treatment plans...
December 2016: Translational Lung Cancer Research
Keisuke Fujii, Ichihiro Yamada, Masahiro Hasuo
We developed a method to infer the calibration parameters of multichannel measurement systems, such as channel variations of sensitivity and noise amplitude, from experimental data. We regard such uncertainties of the calibration parameters as dependent noise. The statistical properties of the dependent noise and that of the latent functions were modeled and implemented in the Gaussian process kernel. Based on their statistical difference, both parameters were inferred from the data. We applied this method to the electron density measurement system by Thomson scattering for the Large Helical Device plasma, which is equipped with 141 spatial channels...
January 2017: Review of Scientific Instruments
Azaher Ali Molla, Chunhuei Chi, Alicia Lorena Núñez Mondaca
BACKGROUND: Predictors of high out-of-pocket household healthcare expenditure are essential for creating effective health system finance policy. In Bangladesh, 63.3% of health expenditure is out-of-pocket and born by households. It is imperative to know what determines household health expenditure. This study aims to investigate the predicting factors of high out-of-pocket household healthcare expenditure targeting to put forward policy recommendations on equity in financial burden. METHODS: Bangladesh household income and expenditure survey 2010 provides data for this study...
January 31, 2017: BMC Health Services Research
Amir Kiperwas, Daniel Rosenfeld, Yonina C Eldar
We present an algorithm for resampling a function from its values on a non-Cartesian grid onto a Cartesian grid. This problem arises in many applications such as MRI, CT, radio astronomy and geophysics. Our algorithm, termed SParse Uniform ReSampling (SPURS), employs methods from modern sampling theory to achieve a small approximation error while maintaining low computational cost. The given non-Cartesian samples are projected onto a selected intermediate subspace, spanned by integer translations of a compactly supported kernel function...
November 1, 2016: IEEE Transactions on Medical Imaging
Jessica V Bryant, Xingyuan Zeng, Xiaojiang Hong, Helen J Chatterjee, Samuel T Turvey
: Conservation management requires an evidence-based approach, as uninformed decisions can signify the difference between species recovery and loss. The Hainan gibbon, the world's rarest ape, reportedly exploits the largest home range of any gibbon species, with these apparently large spatial requirements potentially limiting population recovery. However, previous home range assessments rarely reported survey methods, effort, or analytical approaches, hindering critical evaluation of estimate reliability...
March 2017: American Journal of Primatology
Farhan M Bhat, Charanjit S Riar
The aim of present research was to evaluate physical and engineering properties of traditional paddy and rice cultivars native to temperate region of India. Length, width, thickness, equivalent diameter, surface area, aspect ratio, volume, bulk density, true density, porosity, thousand kernels weight, angle of repose and coefficient of friction were evaluated, which are required in designing of various post harvest operations and storage structures. The low bulk density of cultivars, Mushki budgi, Mushki tujan and Kaw kareed may be due to the presence of long awns possessed by these cultivars which were bulky and occupied more space...
December 2016: Journal of Food Science and Technology
Alvin Ihsani, Troy Farncombe
A novel maximum a posteriori (MAP) method for dynamic SPECT image reconstruction is proposed. The prior probability is modelled as a multivariate kernel density estimator (KDE), effectively modelling the prior probability nonparametrically, with the aim of reducing the effects of artifacts arising from inconsistencies in projection measurements in lowcount regimes where projections are dominated by noise. The proposed prior spatially and temporally limits the variation of time-activity functions (TAF) and "attracts" similar TAFs together...
March 25, 2016: IEEE Transactions on Image Processing: a Publication of the IEEE Signal Processing Society
Grady Weyenberg, Ruriko Yoshida, Daniel Howe
As costs of genome sequencing have dropped precipitously, development of efficient bioinformatic methods to analyze genome structure and evolution have become ever more urgent. For example, most published phylogenomic studies involve either massive concatenation of sequences, or informal comparisons of phylogenies inferred on a small subset of orthologous genes, neither of which provides a comprehensive overview of evolution or systematic identification of genes with unusual and interesting evolution (e.g. horizontal gene transfers, gene duplication and subsequent neofunctionalization)...
May 10, 2016: IEEE/ACM Transactions on Computational Biology and Bioinformatics
Jun Wang, Kevin Kai Xu
LiDAR scanning has become a prevalent technique for digitalizing large-scale outdoor scenes. However, the raw LiDAR data often contain imperfections, e.g., missing large regions, anisotropy of sampling density, and contamination of noise and outliers, which are the major obstacles that hinder its more ambitious and higher level applications in digital city modeling. Observing that 3D urban scenes can be locally described with several low dimensional subspaces, we propose to locally classify the neighborhoods of the scans to model the substructures of the scenes...
August 31, 2016: IEEE Transactions on Visualization and Computer Graphics
Petros Asghari, Vahid Fakoor
In many applications, the available data come from a sampling scheme that causes loss of information in terms of left truncation. In some cases, in addition to left truncation, the data are weakly dependent. In this paper we are interested in deriving the asymptotic normality as well as a Berry-Esseen type bound for the kernel density estimator of left truncated and weakly dependent data.
2017: J Inequal Appl
Wei Zhao, Ying Qing Chen, Li Hsu
Population attributable fraction (PAF) is widely used to quantify the disease burden associated with a modifiable exposure in a population. It has been extended to a time-varying measure that provides additional information on when and how the exposure's impact varies over time for cohort studies. However, there is no estimation procedure for PAF using data that are collected from population-based case-control studies, which, because of time and cost efficiency, are commonly used for studying genetic and environmental risk factors of disease incidences...
January 18, 2017: Biometrics
Jin Xie, Fan Zhu, Guoxian Dai, Ling Shao, Yi Fang
Since there are complex geometric variations with 3D shapes, extracting efficient 3D shape features is one of the most challenging tasks in shape matching and retrieval. In this paper, we propose a deep shape descriptor by learning shape distributions at different diffusion time via a progressive shape-distribution-encoder (PSDE). First, we develop a shape distribution representation with the kernel density estimator to characterize the intrinsic geometry structures of 3D shapes. Then, we propose to learn a deep shape feature through an unsupervised PSDE...
March 2017: IEEE Transactions on Image Processing: a Publication of the IEEE Signal Processing Society
Salvador A Gezan, Luis F Osorio, Sujeet Verma, Vance M Whitaker
The primary goal of genomic selection is to increase genetic gains for complex traits by predicting performance of individuals for which phenotypic data are not available. The objective of this study was to experimentally evaluate the potential of genomic selection in strawberry breeding and to define a strategy for its implementation. Four clonally replicated field trials, two in each of 2 years comprised of a total of 1628 individuals, were established in 2013-2014 and 2014-2015. Five complex yield and fruit quality traits with moderate to low heritability were assessed in each trial...
2017: Horticulture Research
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