scholarly journals Quantifying and visualising divergence between pairs of phylogenetic trees: implications for phylogenetic reconstruction

2017 ◽  
Author(s):  
Martin R. Smith
Keyword(s):  
Phylogenetic Trees ◽  
Phylogenetic Reconstruction ◽  
Topological Information ◽  
Accuracy And Precision ◽  
Tree Topologies ◽  
New Perspective ◽  
Tree Quality ◽  
Primary Output ◽  
Phylogenetic Method

ABSTRACTTree topologies are a primary output of phylogenetic analysis. It is important to understand how such outputs are influenced by the choice of phylogenetic method, and the nature and quality of input data. This often entails the measurement of how closely an output corresponds to an ideal tree topology. The symmetric difference (partition) metric is the only widely-used measure that is defined for trees that contain polytomies, but expresses undesirable behaviour in certain situations.Here I propose a divergence metric for unweighted tree topologies based on quartet statements, which measures the topological information common to two trees. This metric reflects the contributions of both accuracy and precision to tree quality; these components can be decomposed through the use of ternary diagrams. This approach is implemented in a new package for the R statistical environment, and applied to a recent controversy, where it provides a new perspective on the relative merits of Bayesian and parsimony approaches to morphological phylogenetics.

scholarly journals Using Avida to Test the Effects of Natural Selection on Phylogenetic Reconstruction Methods

2004 ◽  
Vol 10 (2) ◽  
pp. 157-166 ◽  
Author(s):  
George I. Hagstrom ◽  
Dehua H. Hang ◽  
Charles Ofria ◽  
Eric Torng
Keyword(s):  
Natural Selection ◽  
Phylogenetic Trees ◽  
Sequence Data ◽  
Phylogenetic Reconstruction ◽  
Branch Points ◽  
Reconstruction Algorithms ◽  
Molecular Sequence Data ◽  
Molecular Sequence ◽  
Reconstruction Methods

Phylogenetic trees group organisms by their ancestral relationships. There are a number of distinct algorithms used to reconstruct these trees from molecular sequence data, but different methods sometimes give conflicting results. Since there are few precisely known phylogenies, simulations are typically used to test the quality of reconstruction algorithms. These simulations randomly evolve strings of symbols to produce a tree, and then the algorithms are run with the tree leaves as inputs. Here we use Avida to test two widely used reconstruction methods, which gives us the chance to observe the effect of natural selection on tree reconstruction. We find that if the organisms undergo natural selection between branch points, the methods will be successful even on very large time scales. However, these algorithms often falter when selection is absent.

Gaining a new perspective on the quality of parent–adolescent relationships from adolescent speech samples.

2020 ◽  
Vol 34 (8) ◽  
pp. 938-948
Author(s):  
Sarah McKenna ◽  
Alison Hassall ◽  
Richard O'Kearney ◽  
Dave Pasalich
Keyword(s):  
Adolescent Relationships ◽  
New Perspective

Pengaruh Kompetensi Coder terhadap Keakuratan dan Ketepatan Pengkodean Menggunakan ICD 10 di Rumah Sakit X Pekanbaru Tahun 2016

2018 ◽  
Vol 1 (1) ◽  
pp. 31-43
Author(s):  
Nur Maimun ◽  
Jihan Natassa ◽  
Wen Via Trisna ◽  
Yeye Supriatin
Keyword(s):  
Medical Record ◽  
Human Error ◽  
Medical Personnel ◽  
Quality Of Data ◽  
Accuracy And Precision ◽  
Result Show ◽  
Study Implementation ◽  
Icd 10 ◽  
The Cost

The accuracy in administering the diagnosis code was the important matter for medical recorder, quality of data was the most important thing for health information management of medical recorder. This study aims to know the coder competency for accuracy and precision of using ICD 10 at X Hospital in Pekanbaru. This study was a qualitative method with case study implementation from five informan. The result show that medical personnel (doctor) have never received a training about coding, doctors writing that hard and difficult to read, failure for making diagnoses code or procedures, doctor used an usual abbreviations that are not standard, theres still an officer who are not understand about the nomenclature and mastering anatomy phatology, facilities and infrastructure were supported for accuracy and precision of the existing code. The errors of coding always happen because there is a human error. The accuracy and precision in coding very influence against the cost of INA CBGs, medical and the committee did most of the work in the case of severity level III, while medical record had a role in monitoring or evaluation of coding implementation. If there are resumes that is not clearly case mix team check file needed medical record the result the diagnoses or coding for conformity. Keywords: coder competency, accuracy and precision of coding, ICD 10

scholarly journals Systematic Analysis of Literature on the Marketing of Healthcare Systems. Challenges for Russian and Romanian Healthcare Systems

Healthcare ◽  
2021 ◽  
Vol 9 (6) ◽  
pp. 656
Author(s):  
Vladimir Bulatnikov ◽  
Cristinel Petrişor Constantin
Keyword(s):  
Quality Of Healthcare ◽  
Healthcare Systems ◽  
Business Environment ◽  
Competitive Advantages ◽  
Systematic Analysis ◽  
Scientific Databases ◽  
Advantages And Disadvantages ◽  
Funds Allocation ◽  
New Perspective

This paper aims at finding the most dominant ideas about the marketing of healthcare systems highlighted in the mainstream literature, with a focus on Russia and Romania. To reach this goal, a systematic analysis of literature was conducted and various competitive advantages and disadvantages of the medical models that require special attention from the governments are considered. In this respect we examined 106 papers published during 2006 to 2020 found on four scientific databases. They were selected using inclusion and exclusion criteria according to PRISMA methodology. The main findings of the research consist of the opportunity to use marketing tools in order to improve the quality of healthcare systems in the named countries. Thus, using market orientation, the managers of healthcare systems could stimulate the innovation, the efficiency of funds allocation and the quality of medical services. The results will lead to a better quality of population life and to an increasing of life expectancy. As this paper reviews some articles from Russian literature, it can add a new perspective to the topic. These outcomes have implications for government, business environment, and academia, which should cooperate in order to develop the healthcare system using marketing strategies.

scholarly journals Evaluating Alternative Flight Plans in Thermal Drone Wildlife Surveys—Simulation Study

2021 ◽  
Vol 13 (6) ◽  
pp. 1102
Author(s):  
Julia Witczuk ◽  
Stanisław Pagacz
Keyword(s):  
Computer Simulations ◽  
Survey Design ◽  
Distance Sampling ◽  
Line Of Sight ◽  
Density Estimates ◽  
Accuracy And Precision ◽  
Survey Costs ◽  
Random Survey ◽  
Density Population

The rapidly developing technology of unmanned aerial vehicles (drones) extends to the availability of aerial surveys for wildlife research and management. However, regulations limiting drone operations to visual line of sight (VLOS) seriously affect the design of surveys, as flight paths must be concentrated within small sampling blocks. Such a design is inferior to spatially unrestricted randomized designs available if operations beyond visual line of sight (BVLOS) are allowed. We used computer simulations to assess whether the VLOS rule affects the accuracy and precision of wildlife density estimates derived from drone collected data. We tested two alternative flight plans (VLOS vs. BVLOS) in simulated surveys of low-, medium- and high-density populations of a hypothetical ungulate species with three levels of effort (one to three repetitions). The population density was estimated using the ratio estimate and distance sampling method. The observed differences in the accuracy and precision of estimates from the VLOS and BVLOS surveys were relatively small and negligible. Only in the case of the low-density population (2 ind./100 ha) surveyed once was the VLOS design inferior to BVLOS, delivering biased and less precise estimates. These results show that while the VLOS regulations complicate survey logistics and interfere with random survey design, the quality of derived estimates does not have to be compromised. We advise testing alternative survey variants with the aid of computer simulations to achieve reliable estimates while minimizing survey costs.

scholarly journals The Etiology and Pathophysiology Genesis of Benign Prostatic Hyperplasia and Prostate Cancer: A New Perspective

Medicines ◽  
2021 ◽  
Vol 8 (6) ◽  
pp. 30
Author(s):  
Teow J. Phua
Keyword(s):  
Prostate Cancer ◽  
Benign Prostatic Hyperplasia ◽  
Cell Biology ◽  
Cancer Biology ◽  
Cost Savings ◽  
Prostatic Hyperplasia ◽  
Biological Processes ◽  
New Perspective ◽  
Prostatic Diseases

Background: The etiology of benign prostatic hyperplasia and prostate cancer are unknown, with ageing being the greatness risk factor. Methods: This new perspective evaluates the available interdisciplinary evidence regarding prostate ageing in terms of the cell biology of regulation and homeostasis, which could explain the timeline of evolutionary cancer biology as degenerative, inflammatory and neoplasm progressions in these multifactorial and heterogeneous prostatic diseases. Results: This prostate ageing degeneration hypothesis encompasses the testosterone-vascular-inflamm-ageing triad, along with the cell biology regulation of amyloidosis and autophagy within an evolutionary tumorigenesis microenvironment. Conclusions: An understanding of these biological processes of prostate ageing can provide potential strategies for early prevention and could contribute to maintaining quality of life for the ageing individual along with substantial medical cost savings.

scholarly journals A Data Science Analysis of Academic Staff Workload Profiles in Spanish Universities: Gender Gap Laid Bare

2021 ◽  
Vol 11 (7) ◽  
pp. 317
Author(s):  
Ismael Cabero ◽  
Irene Epifanio
Keyword(s):  
Gender Gap ◽  
Data Science ◽  
Academic Staff ◽  
Machine Learning Techniques ◽  
Academic Disciplines ◽  
University Environment ◽  
Learning Techniques ◽  
Spanish Universities ◽  
New Perspective

This paper presents a snapshot of the distribution of time that Spanish academic staff spend on different tasks. We carry out a statistical exploratory study by analyzing the responses provided in a survey of 703 Spanish academic staff in order to draw a clear picture of the current situation. This analysis considers many factors, including primarily gender, academic ranks, age, and academic disciplines. The tasks considered are divided into smaller activities, which allows us to discover hidden patterns. Tasks are not only restricted to the academic world, but also relate to domestic chores. We address this problem from a totally new perspective by using machine learning techniques, such as cluster analysis. In order to make important decisions, policymakers must know how academic staff spend their time, especially now that legal modifications are planned for the Spanish university environment. In terms of the time spent on quality of teaching and caring tasks, we expose huge gender gaps. Non-recognized overtime is very frequent.

Statistical analysis of nematode counts from interlaboratory proficiency tests

Nematology ◽  
2014 ◽  
Vol 16 (2) ◽  
pp. 229-243 ◽  
Author(s):  
Wim Van Den Berg ◽  
Olaf Hartsema ◽  
Loes J.M.F. Den Nijs
Keyword(s):  
Statistical Analysis ◽  
Proficiency Test ◽  
Meta Analysis ◽  
Proficiency Tests ◽  
Free Living ◽  
Accuracy And Precision ◽  
Mean And Variance ◽  
The Mean ◽  
Interaction Variance

A series of proficiency tests on potato cyst nematode (PCN; ) and free-living stages of Meloidogyne and Pratylenchus () were investigated to determine the accuracy and precision of the nematode counts and to gain insights into possible trends and potential improvements. In each test, each participating laboratory received ten samples of soil collected from naturally infested fields and well mixed before distribution. The variance between the counts from the ten samples, estimated per test and laboratory, was constant for PCN cysts and free-living stages of Meloidogyne spp. and Pratylenchus spp. during the period monitored. However, during the initial years, the variance between the samples showed a downward trend for PCN living juveniles. The variance between the laboratories, estimated per test, was constant for PCN cysts over the period 1994-2010. For PCN living juveniles the variance between laboratory means declined from 1994-2000 and from 2000 it was more or less constant, which coincided with the introduction of a well-described new methodology. For Meloidogyne spp. and Pratylenchus spp., from 1998-2005 the variance between laboratory means was more or less constant or increased. From 2006, all participating laboratories incubated the organic matter and the variance between the laboratories was stable and below the levels observed during 2003-2005. After discarding data from initial years with unstable variances of the nematode counts, a meta-analysis was carried out on the remaining data using HGLMs to model the mean and variance of the counts simultaneously. The within-laboratory variance for the ten samples and the interaction variance of test and laboratory were estimated and combined to percentage coefficient of variation (%CV) per laboratory. For PCN cysts, %CV per laboratory ranged from 12.6 to 41.6 and for PCN juveniles in sandy soil from 24.4 to 67.4 and in loamy soil from 37.9 to 102.0. For Meloidogyne spp., %CV ranged from 53.2 to 84.4 and for Pratylenchus spp. from 24.3 to 90.6. The quality of a proficiency test is largely defined by random distribution of the nematodes over the samples allocated, statistical analysis of the data and communication of the results to participating laboratories. This study provides insights into the accuracy and precision at laboratories in recent years and the effect of concerted actions during the period in which the proficiency tests were conducted.

scholarly journals Innovation Trajectories for a Society 5.0

Data ◽  
2021 ◽  
Vol 6 (11) ◽  
pp. 115
Author(s):  
Fabio De Felice ◽  
Marta Travaglioni ◽  
Antonella Petrillo
Keyword(s):  
Industry 4.0 ◽  
Well Being ◽  
Enabling Factors ◽  
Interpretive Structural Modeling ◽  
Main Driver ◽  
Increase Productivity ◽  
New Perspective ◽  
Hierarchy Process ◽  
The Internet Of Things

Big Data, the Internet of Things, and robotic and augmented realities are just some of the technologies that belong to Industry 4.0. These technologies improve working conditions and increase productivity and the quality of industry production. However, they can also improve life and society as a whole. A new perspective is oriented towards social well-being and it is called Society 5.0. Industry 4.0 supports the transition to the new society, but other drivers are also needed. To guide the transition, it is necessary to identify the enabling factors that integrate Industry 4.0. A conceptual framework was developed in which these factors were identified through a literature review and the analytical hierarchy process (AHP) methodology. Furthermore, the way in which they relate was evaluated with the help of the interpretive structural modeling (ISM) methodology. The proposed framework fills a research gap, which has not yet consolidated a strategy that includes all aspects of Society 5.0. As a result, the main driver, in addition to technology, is international politics.

scholarly journals A New Perspective for a Global QoS-based Internet

2017 ◽  
Vol 1 (1) ◽  
pp. 13 ◽  
Author(s):  
Pierre Levis ◽  
Mohamed Boucadair ◽  
Pierrick Morand ◽  
Jason Spencer ◽  
David Griffin ◽  
...  
Keyword(s):  
Quality Of Service ◽  
Ip Networks ◽  
Border Gateway Protocol ◽  
Research Activities ◽  
New Perspective ◽  
Multiple Domains

Several Quality of Service (QoS) architectures and mechanisms have been proposed by standardisation bodies.However, those proposals were not always aligned with the spirit of IP networks. Furthermore, most research activities have focused to date on supporting QoS only within a singleadministrative domain. In this paper, we demonstrate that it is possible to provision QoS-enabled services that maintain the ability to easily connect any pair of users worldwide. For this purpose, we introduce the notion of Meta-QoS-Class and demonstrate its relevance for building QoS-enabled services across multiple domains. We then show how a QoS-enhanced Border Gateway Protocol (q-BGP) can be used together with Meta-QoS-Classes, for building a set of parallel Internet planes with different QoS capabilities. This concept opens up a new perspective for a global QoS-based Internet.

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