共查询到20条相似文献，搜索用时 15 毫秒
1.
《IRBM》2023,44(3):100746
Objectivethis paper presents an innovative graphical user interface to visualize the attitude of a sensing device in a three-dimensional space, serving a wide-range of medical applications.Material and methodsbased on inertial measurement units (IMU) or on magnetic, angular rate and gravity (MARG) sensors, a processing unit provides Euler angles using a sensor fusion technique to display the orientation of the device relative to the Earth frame in real-time. The device is schematized by linking six polygonal regions, and is subject to sequential rotations by updating the graph each 350 ms. We conduct comparative studies between the two sensing devices, i.e. IMUs and MARGs, as well as two orientation filters, namely Madgwick's algorithm and Mahony's algorithm.Resultsthe accuracy of the system is reported as a function of (i) the sampling frequency, (ii) the sensing unit, and (iii) the orientation filter, following two elderly care applications, namely fall risk assessment and body posture monitoring. The experiments are conducted using public datasets. The corresponding results show that Madgwick's algorithm is best suited for low sampling rates, whereas MARG sensors are best suited for the detection of postural transitions.Conclusionthis paper addresses the different aspects and discusses the limitations of attitude estimation systems, which are important tools to help clinicians in their diagnosis. 相似文献
2.
Stefanie E. LaZerte Matthew W. Reudink Ken A. Otter Jackson Kusack Jacob M. Bailey Austin Woolverton Mark Paetkau Adriaan de Jong David J. Hill 《Ecology and evolution》2017,7(19):7884-7896
Radio frequency identification (RFID) provides a simple and inexpensive approach for examining the movements of tagged animals, which can provide information on species behavior and ecology, such as habitat/resource use and social interactions. In addition, tracking animal movements is appealing to naturalists, citizen scientists, and the general public and thus represents a tool for public engagement in science and science education. Although a useful tool, the large amount of data collected using RFID may quickly become overwhelming. Here, we present an R package (feedr) we have developed for loading, transforming, and visualizing time‐stamped, georeferenced data, such as RFID data collected from static logger stations. Using our package, data can be transformed from raw RFID data to visits, presence (regular detections by a logger over time), movements between loggers, displacements, and activity patterns. In addition, we provide several conversion functions to allow users to format data for use in functions from other complementary R packages. Data can also be visualized through static or interactive maps or as animations over time. To increase accessibility, data can be transformed and visualized either through R directly, or through the companion site: http://animalnexus.ca , an online, user‐friendly, R‐based Shiny Web application. This system can be used by professional and citizen scientists alike to view and study animal movements. We have designed this package to be flexible and to be able to handle data collected from other stationary sources (e.g., hair traps, static very high frequency (VHF) telemetry loggers, observations of marked individuals in colonies or staging sites), and we hope this framework will become a meeting point for science, education, and community awareness of the movements of animals. We aim to inspire citizen engagement while simultaneously enabling robust scientific analysis. 相似文献
3.
Johanna Märtz;Aimee Tallian;Camilla Wikenros;Rick W. Heeres; 《Ecology and evolution》2024,14(7):e11695
The rapid evolution of GPS devices, and therefore, collection of GPS data can be used to investigate a wide variety of topics in wildlife research. The combination of remotely collected GPS data with on-the-ground field investigations is a powerful tool for exploring behavioral ecology. “GPS cluster studies” are aimed at pinpointing and investigating identified clusters in the field. Activity clusters can be based on various parameters (e.g., distance between GPS locations and the number of locations needed to establish a cluster), which are closely related to the set research questions. Variation in methods across years within the same study may result in data collection biases. Therefore, a streamlined method to parametrize, generate interactive maps, and extract activity cluster data using a predefined approach will limit biases, and make field work and data management straightforward for field technicians. We developed the “ClusterApp” Shiny application in the R software to facilitate a step-by-step guide to execute cluster analyses and data management of cluster studies on any species using GPS data. We illustrate the use of the “ClusterApp” with two location datasets constructed by data collected on brown bears (Ursus arctos) and gray wolves (Canis lupus). 相似文献
4.
【目的】以粪肠球菌为宿主菌,从医院的污水中筛选出相应的粪肠球菌噬菌体v B_Efa P_IME195,简称IME195,研究其生物学特性;并通过高通量测序得到其全基因组,深入研究其基因组学特征。【方法】以临床的耐药粪肠球菌为宿主菌,利用医院污水筛选噬菌体并纯化;对噬菌体IME195生物学特性进行了深入研究,包括电镜观察噬菌体形态、最佳感染复数、一步生长曲线、噬菌体IME195对紫外线的敏感度、对温度的耐受程度、对p H的耐受程度、对氯仿是否敏感;通过蛋白酶K/SDS法提取噬菌体IME195全基因组;Ion Torrent高通量测序;测序后进行噬菌体全基因组序列组装、注释、进化分析和比较分析。【结果】通过噬菌体梯度稀释,双层培养基平板法得到噬菌斑边缘分明、斑体透明的裂解性噬菌体IME195,最佳感染复数为0.01,一步生长曲线显示IME195的潜伏期为30 min,暴发量为11。该噬菌体对紫外线比较敏感,对5%浓度的氯仿不敏感,噬菌体对高温比较敏感,该噬菌体在p H 6.0-8.0范围内具有良好的裂解活性;电镜观察结果显示该噬菌体属于尾病毒目短尾噬菌体科;全基因组分析表明:噬菌体IME195基因组大小只有18 607 bp(Gen Bank登录号为KT932700),G+C含量仅为33%。BLASTn比对结果表明,该噬菌体和Gen Bank中的噬菌体v B_Efae230P-4只有82%的相似性。对噬菌体IME195进行了全基因组功能注释和进化分析。【结论】分离鉴定了一株粪肠球菌噬菌体,进行了生物学特性、全基因组测序和生物信息学深入分析,为噬菌体治疗多重耐药细菌奠定了基础。 相似文献
5.
6.
The display of ontological information has become a crucial factor over the last decade in systems biology. The possibility to compare different ontological systems in a single application has however not been answered with an appropriate application. OntoSlug is an easy to use application that tries to fill this need. OntoSlug has been developed for use in classroom settings and scientific laboratory environment. 相似文献
7.
Data mining, finding and integration of information about proteins of interest, is an essential component in modern biological and biomedical research. Even when focusing on a single organism and only on a small number of proteins, there are often dozens fo data sources containing relevant information. We are developing PRIME, a protein information environment, to serve as a virtual central database which integrates distributed heterogeneous information about proteins (linked by common identifier). PRIME has powerful capabilities to visualize all kinds of protein annotation in specialized views. These views can be displayed side by side at the same time and can be synchronized in order to show simultaneously different aspects of identical proteins. These features allow a quick and comprehensive overview of properties of single proteins or protein sets. 相似文献
8.
Accurate measurements of ring-width series are essential for dendrochronological analyses. We present an R package MtreeRing for ring-width measurements on scanned digital images. A morphological alternate sequential filter is used for noise reduction in the original image. Ring boundaries are determined by the steepest negative slopes in the light reflectance of latewood-earlywood transitions. To automatically identify tree rings, the package provides three alternative methods (watershed-based segmentation, Canny edge detector, and a linear detection algorithm), each with advantages and disadvantages and suited to different wood anatomical features. The user can also manually mark tree rings on species with complex anatomical structures. The arcs of inner-rings and angles of successive inclined ring boundaries are used to correct ring-width series. Differences in ring-width measurements between MtreeRing and WinDENDRO in a given coniferous species (Larix gmelinii) were assessed, and no significant difference between programs was found. Furthermore, the package provides an R-based web application which was developed using the Shiny framework. This beginner-friendly application allows viewing and interacting with tree ring images. It requires no programming experience and can run on either a local computer or a remote server. 相似文献
9.
10.
11.
测序技术的发展促使人类基因组测序成本急剧降低,测序速度迅速增加,对这些数据的分析和可视化已成为生命科学领域最重要的课题之一.基因组浏览器技术在基因序列分析,遗传密码解读,复杂疾病研究等方面具有重要意义.本文综述了9种主要的基因组浏览器技术,并从可视化内容、可视化形式、软件系统架构等角度分析了它们的特点.最后,探讨了基因组浏览器发展所面临的挑战. 相似文献
12.
13.
HAN Yujun NI Peixiang U Hong YE Jia HU Jianfei CHEN Chen HUANG Xiangang CONG Lijuan Li Guangyuan WANG Jing GU Xiaocheng YU Jun Li Songgang 《中国科学C辑(英文版)》2005,48(3)
Double-barreled (DB) data have been widely used for the assembly of large genomes. Based on the experience of building the whole-genome working draft of Oryza sativa L.ssp. Indica, we present here the prevailing and improved uses of DB data in the assembly procedure and report on novel applications during the following data-mining processes such as acquiring precise insert fragment information of each clone across the genome, and a new kind of Iow-cost whole-genome microarray. With the increasing number of organisms being sequenced,we believe that DB data will play an important role both in other assembly procedures and infuture genomic studies. 相似文献
14.
HAN Yujun NI Peixiang Lü Hong YE Jia HU Jianfei CHEN Chen HUANG Xiangang CONG Lijuan LI Guangyuan WANG Jing GU Xiaocheng YU Jun & LI Songgang . College of Life Sciences Peking University Beijing China . Beijing Genomics Institute Chinese Academy of Sciences Beijing China . James D. Watson Institute of Genome Sciences Zhejiang University Hangzhou China 《中国科学：生命科学英文版》2005,48(3):300-306
Parallel to improvements in DNA sequencing and computer technologies, the output of bio-information grows dramatically every year. More and more species with important commercial, medical and biological significance have been or are being sequenced. There are two kinds of whole-genome sequencing strategies: The clone-by-clone shotgun method (hierarchical shotgun) and the whole-genome shotgun (WGS) method, each with its individual strengths and draw-backs. In the clone-by-clone method, the a… 相似文献
15.
Raju Chaudhary Chu Shin Koh Sampath Perumal Lingling Jin Erin E. Higgins Sateesh Kagale Mark A. Smith Andrew G. Sharpe Isobel A. P. Parkin 《Plant biotechnology journal》2023,21(3):521-535
Camelina neglecta is a diploid species from the genus Camelina, which includes the versatile oilseed Camelina sativa. These species are closely related to Arabidopsis thaliana and the economically important Brassica crop species, making this genus a useful platform to dissect traits of agronomic importance while providing a tool to study the evolution of polyploids. A highly contiguous chromosome-level genome sequence of C. neglecta with an N50 size of 29.1 Mb was generated utilizing Pacific Biosciences (PacBio, Menlo Park, CA) long-read sequencing followed by chromosome conformation phasing. Comparison of the genome with that of C. sativa shows remarkable coincidence with subgenome 1 of the hexaploid, with only one major chromosomal rearrangement separating the two. Synonymous substitution rate analysis of the predicted 34 061 genes suggested subgenome 1 of C. sativa directly descended from C. neglecta around 1.2 mya. Higher functional divergence of genes in the hexaploid as evidenced by the greater number of unique orthogroups, and differential composition of resistant gene analogs, might suggest an immediate adaptation strategy after genome merger. The absence of genome bias in gene fractionation among the subgenomes of C. sativa in comparison with C. neglecta, and the complete lack of fractionation of meiosis-specific genes attests to the neopolyploid status of C. sativa. The assembled genome will provide a tool to further study genome evolution processes in the Camelina genus and potentially allow for the identification and exploitation of novel variation for Camelina crop improvement. 相似文献
16.
Domestic rice (Oryza sativa L.) is one of the most important cereal crops, feeding a large number of worldwide populations. Along with various high-throughput genome sequencing projects, rice genomics has been making great headway toward direct field applications of basic research advances in understanding the molecular mechanisms of agronomical traits and utilizing diverse germplasm resources. Here, we briefly review its achievements over the past two decades and present the potential for its bright future. 相似文献
17.
点滴复膜酵母Cyniclomyces guttulatus是一种定殖及生长于犬、兔、豚鼠、龙猫、大鼠和小鼠等动物胃肠道内的真菌。与大多数传统酵母相比,点滴复膜酵母具有耐酸(pH 1.5-4.5)、耐高温(38-42 ℃)的独特生长特性,可在体外快速增殖。腹泻动物粪便中可见大量点滴复膜酵母,尽管没有直接证据表明感染点滴复膜酵母会引起明显病状,但其被认为是多种动物的机会性致病菌。本研究通过全基因组测序和转录组测序明确点滴复膜酵母的基因结构和注释信息,获得点滴复膜酵母的系统性基因组和转录组数据。结果显示基因组大小为29.71 Mb,包含11 307个基因,转录组大小为17.67 Mb,GC含量分别为43.02%和43.09%;mRNA、CDS、外显子和内含子的平均长度分别为1 476、1 447、1 374和540 bp;点滴复膜酵母存在517个独特的基因家族,共包括1 162个基因,该酵母的独特基因特点为后续研究奠定基础。比较分析结果表明,点滴复膜酵母的基因组大小和数量明显大于其他12种酵母,提示该酵母可能存在全基因组复制,这可能与其独特的胃肠道定殖、耐酸和耐高温生长特性密切相关。 相似文献
18.
同一组织中的细胞往往具有类似的结构和功能,然而通过对单个细胞进行测序分析后,发现每个细胞都具有一定异质性.单细胞全基因组扩增技术是进行单细胞测序的前提,该技术可用于揭示单细胞基因组结构差异,同时在肿瘤研究、发育生物学、微生物学等研究中发挥重要作用,并成为生命科学研究技术的热点之一.单细胞全基因组扩增技术的难点在于单细胞的分离和全基因组的扩增.本文介绍了单细胞全基因组扩增技术中常用的单细胞分离技术和单细胞全基因组扩增技术,并对各技术间的优缺点进行比较,同时着重讨论该技术在肿瘤研究、发育生物学和微生物学研究中的应用. 相似文献
19.
针叶树是裸子植物中最大也是分布最广的一支。作为多年生木本植物,针叶树不仅为工业提供建筑、造纸等重要原料和其它可再生能源,而且在北半球的生态平衡中也起着重要作用。因其独特的分类地位、重要的经济价值和生态价值,针叶树序列资源挖掘备受重视。然而其庞大且复杂的基因组阻碍了这一进程,截至2013年4月,尚无获得全基因组序列的针叶树种。随着第2代测序技术的出现及生物信息学的快速发展,针叶树序列资源挖掘也从转录组过渡到全基因组测序,后者己在松属（Pinus）、云杉属（Picea）和黄杉属（Pseudotsuga）部分树种中开展。该文首次归纳了针叶树基因组特征．回顾了针叶树序列资源挖掘进程,并重点介绍了火炬松（Pinustaeda）、欧洲云杉（Piceaabies）和白云杉（Piceaglauca）的全基因组测序项目。 相似文献
20.
Liliana C. M. Salvador Daniel J. O'Brien Melinda K. Cosgrove Tod P. Stuber Angie M. Schooley Joseph Crispell Steven V. Church Yrj T. Grhn Suelee Robbe‐Austerman Rowland R. Kao 《Molecular ecology》2019,28(9):2192-2205
The role of wildlife in the persistence and spread of livestock diseases is difficult to quantify and control. These difficulties are exacerbated when several wildlife species are potentially involved. Bovine tuberculosis (bTB), caused by Mycobacterium bovis, has experienced an ecological shift in Michigan, with spillover from cattle leading to an endemically infected white‐tailed deer (deer) population. It has potentially substantial implications for the health and well‐being of both wildlife and livestock and incurs a significant economic cost to industry and government. Deer are known to act as a reservoir of infection, with evidence of M. bovis transmission to sympatric elk and cattle populations. However, the role of elk in the circulation of M. bovis is uncertain; they are few in number, but range further than deer, so may enable long distance spread. Combining Whole Genome Sequences (WGS) for M. bovis isolates from exceptionally well‐observed populations of elk, deer and cattle with spatiotemporal locations, we use spatial and Bayesian phylogenetic analyses to show strong spatiotemporal admixture of M. bovis isolates. Clustering of bTB in elk and cattle suggests either intraspecies transmission within the two populations, or exposure to a common source. However, there is no support for significant pathogen transfer amongst elk and cattle, and our data are in accordance with existing evidence that interspecies transmission in Michigan is likely only maintained by deer. This study demonstrates the value of whole genome population studies of M. bovis transmission at the wildlife‐livestock interface, providing insights into bTB management in an endemic system. 相似文献