scholarly journals Mixed effect models for genetic and areal dependencies in linguistic typology

2011 ◽  
Vol 15 (2) ◽  
Author(s):  
T. Florian Jaeger ◽  
Peter Graff ◽  
William Croft ◽  
Daniel Pontillo
Keyword(s):  
Linguistic Typology ◽  
Mixed Effect ◽  
Mixed Effect Models

scholarly journals Coevolution of structural variation and optimization in sound systems of human language

2018 ◽  
Author(s):  
Meng-Han Zhang ◽  
Tao Gong
Keyword(s):  
Large Scale ◽  
Structural Variation ◽  
Human Language ◽  
Linguistic Typology ◽  
Mixed Effect ◽  
World Languages ◽  
Mixed Effect Models ◽  
Gradual Evolution ◽  
Vowel Systems ◽  
Two Parameters

AbstractEvolution of sound systems of human language is an optimization process to improve communicative effectiveness: The intrinsic structures of sound systems are constantly organized with respect to constraints in speech production and perception. However, there lack sufficient quantitative descriptions of this process, large-scale investigations on universal tendencies in sound systems, and explicit evidence on whether demographic and/or geographic factors can influence linguistic typology of sound systems. Here, we proposed two composite parameters, namely structural variation and optimization, to capture linguistic typology of sound systems, vowel systems in particular. Synchronic comparisons based on a large-scale vowel corpus of world languages revealed a universal negative correlation between the two parameters. Phylogenetic comparative analyses identified a correlated evolution of the two, but with distinct evolutionary modes: a gradual evolution of the structural variation and a punctuated equilibrium of the optimization. Mixed-effect models also reported significant effects of speaker population size and longitude on shaping vowel systems of world languages. All these findings elaborate the intrinsic evolutionary mechanism of sound systems, clarify the extrinsic, non-linguistic effects on shaping human sound systems, and quantitatively describe and interpret the evolution and typology of sound systems.

scholarly journals A hierarchical bivariate meta-analysis of diagnostic test accuracy to provide direct comparisons of immunoassays vs. indirect immunofluorescence for initial screening of connective tissue diseases

2020 ◽  
Vol 0 (0) ◽  
Author(s):  
Michelle Elaine Orme ◽  
Carmen Andalucia ◽  
Sigrid Sjölander ◽  
Xavier Bossuyt
Keyword(s):  
Connective Tissue ◽  
Indirect Immunofluorescence ◽  
Meta Analysis ◽  
Connective Tissue Diseases ◽  
Test Accuracy ◽  
Initial Screening ◽  
Case Control Studies ◽  
Cross Sectional ◽  
Mixed Effect ◽  
Mixed Effect Models

AbstractObjectivesTo compare indirect immunofluorescence (IIF) for antinuclear antibodies (ANA) against immunoassays (IAs) as an initial screening test for connective tissue diseases (CTDs).MethodsA systematic literature review identified cross-sectional or case-control studies reporting test accuracy data for IIF and enzyme-linked immunosorbent assays (ELISA), fluorescence enzyme immunoassay (FEIA), chemiluminescent immunoassay (CLIA) or multiplex immunoassay (MIA). The meta-analysis used hierarchical, bivariate, mixed-effect models with random-effects by test.ResultsDirect comparisons of IIF with ELISA showed that both tests had good sensitivity (five studies, 2321 patients: ELISA: 90.3% [95% confidence interval (CI): 80.5%, 95.5%] vs. IIF at a cut-off of 1:80: 86.8% [95% CI: 81.8%, 90.6%]; p = 0.4) but low specificity, with considerable variance across assays (ELISA: 56.9% [95% CI: 40.9%, 71.5%] vs. IIF 1:80: 68.0% [95% CI: 39.5%, 87.4%]; p = 0.5). FEIA sensitivity was lower than IIF sensitivity (1:80: p = 0.005; 1:160: p = 0.051); however, FEIA specificity was higher (seven studies, n = 12,311, FEIA 93.6% [95% CI: 89.9%, 96.0%] vs. IIF 1:80 72.4% [95% CI: 62.2%, 80.7%]; p < 0.001; seven studies, n = 3251, FEIA 93.5% [95% CI: 91.1%, 95.3%] vs. IIF 1:160 81.1% [95% CI: 73.4%, 86.9%]; p < 0.0001). CLIA sensitivity was similar to IIF (1:80) with higher specificity (four studies, n = 1981: sensitivity 85.9% [95% CI: 64.7%, 95.3%]; p = 0.86; specificity 86.1% [95% CI: 78.3%, 91.4%]). More data are needed to make firm inferences for CLIA vs. IIF given the wide prediction region. There were too few studies for the meta-analysis of MIA vs. IIF (MIA sensitivity range 73.7%–86%; specificity 53%–91%).ConclusionsFEIA and CLIA have good specificity compared to IIF. A positive FEIA or CLIA test is useful to support the diagnosis of a CTD. A negative IIF test is useful to exclude a CTD.

scholarly journals Neurophysiological and behavioural effects of conventional and high definition tDCS

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Fabio Masina ◽  
Giorgio Arcara ◽  
Eleonora Galletti ◽  
Isabella Cinque ◽  
Luciano Gamberini ◽  
...  
Keyword(s):  
Response Times ◽  
Power Reduction ◽  
Alpha Power ◽  
High Definition ◽  
Mixed Effect ◽  
State Dependency ◽  
Mixed Effect Models ◽  
Beta Power ◽  
Neurophysiological Data ◽  
Spectrum Density

AbstractHigh-definition transcranial direct current stimulation (HD-tDCS) seems to overcome a drawback of traditional bipolar tDCS: the wide-spread diffusion of the electric field. Nevertheless, most of the differences that characterise the two techniques are based on mathematical simulations and not on real, behavioural and neurophysiological, data. The study aims to compare a widespread tDCS montage (i.e., a Conventional bipolar montage with extracephalic return electrode) and HD-tDCS, investigating differences both at a behavioural level, in terms of dexterity performance, and a neurophysiological level, as modifications of alpha and beta power as measured with EEG. Thirty participants took part in three sessions, one for each montage: Conventional tDCS, HD-tDCS, and sham. In all the conditions, the anode was placed over C4, while the cathode/s placed according to the montage. At baseline, during, and after each stimulation condition, dexterity was assessed with a Finger Tapping Task. In addition, resting-state EEG was recorded at baseline and after the stimulation. Power spectrum density was calculated, selecting two frequency bands: alpha (8–12 Hz) and beta (18–22 Hz). Linear mixed effect models (LMMs) were used to analyse the modulation induced by tDCS. To evaluate differences among the montages and consider state-dependency phenomenon, the post-stimulation measurements were covariate-adjusted for baseline levels. We observed that HD-tDCS induced an alpha power reduction in participants with lower alpha at baseline. Conversely, Conventional tDCS induced a beta power reduction in participants with higher beta at baseline. Furthermore, data showed a trend towards a behavioural effect of HD-tDCS in participants with lower beta at baseline showing faster response times. Conventional and HD-tDCS distinctively modulated cortical activity. The study highlights the importance of considering state-dependency to determine the effects of tDCS on individuals.

scholarly journals Recombining Your Way Out of Trouble: The Genetic Architecture of Hybrid Fitness under Environmental Stress

2019 ◽  
Vol 37 (1) ◽  
pp. 167-182 ◽  
Author(s):  
Zebin Zhang ◽  
Devin P Bendixsen ◽  
Thijs Janzen ◽  
Arne W Nolte ◽  
Duncan Greig ◽  
...  
Keyword(s):  
Environmental Stress ◽  
Evolutionary Potential ◽  
Genetic Trait ◽  
Hybrid Fitness ◽  
Mixed Effect ◽  
Mixed Effect Models ◽  
Hybrid Genome ◽  
Chromosome Associations ◽  
Low Coverage ◽  
Negative Epistasis

Abstract Hybridization between species can either promote or impede adaptation. But we know very little about the genetic basis of hybrid fitness, especially in nondomesticated organisms, and when populations are facing environmental stress. We made genetically variable F2 hybrid populations from two divergent Saccharomyces yeast species. We exposed populations to ten toxins and sequenced the most resilient hybrids on low coverage using ddRADseq to investigate four aspects of their genomes: 1) hybridity, 2) interspecific heterozygosity, 3) epistasis (positive or negative associations between nonhomologous chromosomes), and 4) ploidy. We used linear mixed-effect models and simulations to measure to which extent hybrid genome composition was contingent on the environment. Genomes grown in different environments varied in every aspect of hybridness measured, revealing strong genotype–environment interactions. We also found selection against heterozygosity or directional selection for one of the parental alleles, with larger fitness of genomes carrying more homozygous allelic combinations in an otherwise hybrid genomic background. In addition, individual chromosomes and chromosomal interactions showed significant species biases and pervasive aneuploidies. Against our expectations, we observed multiple beneficial, opposite-species chromosome associations, confirmed by epistasis- and selection-free computer simulations, which is surprising given the large divergence of parental genomes (∼15%). Together, these results suggest that successful, stress-resilient hybrid genomes can be assembled from the best features of both parents without paying high costs of negative epistasis. This illustrates the importance of measuring genetic trait architecture in an environmental context when determining the evolutionary potential of genetically diverse hybrid populations.

Association of fine particulate matter with glucose and lipid metabolism: a longitudinal study in young adults

2021 ◽  
pp. oemed-2020-107039
Author(s):  
Jingyi Qin ◽  
Wei Xia ◽  
Gaodao Liang ◽  
Shunqing Xu ◽  
Xiuge Zhao ◽  
...  
Keyword(s):  
Body Mass Index ◽  
Lipid Metabolism ◽  
Longitudinal Study ◽  
Fine Particulate Matter ◽  
Healthy Adults ◽  
Mixed Effect ◽  
Glucose And Lipid Metabolism ◽  
Mixed Effect Models ◽  
Fine Particulate ◽  
Linear Mixed Effect Models

ObjectivesThis study aimed to evaluate whether PM2.5 exposure in a highly polluted area (>100 µg/m3) affects glucose and lipid metabolism in healthy adults.MethodsWe recruited 110 healthy adults in Baoding city, Hebei, China, and followed them up between 2017 and 2018. Personal air samplers were used to monitor personal PM2.5 levels. Eight glucose and lipid metabolism parameters were quantified. We performed the linear mixed-effect models to investigate the relationships between PM2.5 and glucose and lipid metabolism parameters. Stratified analyses were further performed according to sex and body mass index (BMI).ResultsThe concentration of PM2.5 was the highest in spring, with a median of 232 μg/m3 and the lowest in autumn (139 μg/m3). After adjusting for potential confounders, we found that for each twofold increase in PM2.5, the median of insulin concentration decreased by 5.89% (95% CI −10.91% to −0.58%; p<0.05), and ox-LDL increased by 6.43% (95% CI 2.21% to 10.82%; p<0.05). Stratified analyses indicated that the associations were more pronounced in females, overweight and obese participants.ConclusionsExposure to high PM2.5 may have deleterious effects on glucose and lipid metabolism. Females, overweight and obese participants are more vulnerable.

scholarly journals Prospective study of vitrectomy for epiretinal membranes in patients with good best-corrected visual acuity

2019 ◽  
Author(s):  
Hiroyuki Nakashizuka ◽  
Yorihisa Kitagawa ◽  
Yu Wakatsuki ◽  
Koji Tanaka ◽  
Koichi Furuya ◽  
...  
Keyword(s):  
Visual Acuity ◽  
Foveal Thickness ◽  
Mixed Effect ◽  
Epiretinal Membranes ◽  
Central Foveal Thickness ◽  
Mixed Effect Models ◽  
Corrected Visual Acuity ◽  
Good Group ◽  
Final Observation ◽  
Best Corrected Visual Acuity

Abstract Purpose: To evaluate the efficacy of epiretinal membrane removal in patients with good best-corrected visual acuity (BCVA) for improving visual function and quality of life (QOL). Methods: This prospective case study compared 37 subjects with preoperative BCVA≦logMAR0.046 (Good group) to 35 patients with logMAR BCVA 0.52–0.10 (Moderate group) at 3 and 6 months. Linear mixed-effect models were used for statistical analysis. The primary outcome was the horizontal metamorphopsia score (MH) at 6 months postoperatively (post-6 M), while secondary outcomes were postoperative BCVA, vertical metamorphopsia score (MV), aniseikonia, stereopsis and central foveal thickness. In the Good group, QOL was assessed using the National Eye Institute Visual Functioning Questionnaire-25 (NEI VFQ-25) at 6 and 12 months. Results: MH was significantly improved at post-3 M and post-6 M in the both groups but there were no significant differences between the two groups. MV showed no improvement at the final observation in either group. LogMAR BCVA was significantly improved at post-6 M in the Good group, which had significantly better vision than the Moderate group. Preoperative vertical and horizontal aniseikonia scores remained unchanged in the Good group at post-6 M but worsened in the Moderate group. The NEI VFQ-25 score improved in the Good group, reflecting improved general health, general vision, and mental health. Conclusions: Early epiretinal surgery was effective for MH, BCVA, aniseikonia, and QOL.

scholarly journals Changes in the biomass of scots pine (Pinus sylvestris L.) trees in Europe since 1940

2021 ◽  
pp. 6-22
Author(s):  
А.В. Лебедев ◽  
В.В. Кузьмичев
Keyword(s):  
Wood Density ◽  
Scots Pine ◽  
Wood Properties ◽  
Mixed Effect ◽  
Pine Tree ◽  
Mixed Effect Models ◽  
The Face ◽  
Long Term Trends ◽  
Linear Mixed Effect Models

Сосна обыкновенная является одной из основных лесообразующих пород Европы, а ее древесина находит широкое применение в лесопромышленном комплексе. При оценке углерододепонирующих функций считается, что конверсионные коэффициенты являются константными по времени. Последние исследования показывают, что происходящие климатические изменения оказывают существенное влияние на прирост древесины и ее свойства. Цель данного исследования – выявление долговременных тенденций в изменении биомассы фракций деревьев сосны обыкновенной в Европе, происходящих с 1940 г. Для проверки гипотезы о влиянии календарного года на биомассу фракций деревьев проводился регрессионный анализ с применением линейных моделей смешанных эффектов. Проведенный статистический анализ позволил выявить достоверное влияние (при p < 0,05) календарного года только на биомассу стволов в коре. Наиболее сильно изменения проявляются для деревьев в молодняках и средневозрастных насаждениях, где происходит формирование наибольшего радиального прироста. Для крупномерных стволов, согласно результатам моделирования, снижение биомассы стволов в коре не прослеживается. В ближайшие десятилетия в результате продолжающихся климатических изменений процесс снижения биомассы и плотности древесины крупномерных стволов должен усилиться. Выявленные изменения биомассы сопровождаются снижением плотности древесины, что происходит в результате увеличения в структуре годичного прироста более рыхлой и менее плотной ранней древесины. Таким образом, в условиях ускоряющихся темпов роста древесных растений объемы стволов и запасы древесины не должны напрямую пересчитываться в депонированный углерод с учетом исторических значений конверсионных коэффициентов. Это также следует учитывать при мониторинге, моделировании и использовании углерода и биомассы в лесах в условиях глобальных изменений. Scots pine is one of the main forest-forming species in Europe, and its wood is widely used in the timber industry. When evaluating carbon-depositing functions, the conversion rations are assumed to be constant over time. Recent studies show that the ongoing climatic changes have a significant impact on the growth of trees and wood properties. Therefore, the purpose of this study is to identify long-term trends in the change in the biomass of Scots pine tree fractions in Europe since 1940. To test the hypothesis about the influence of the calendar year on the biomass of tree fractions, regression analysis was performed using linear mixed-effect models. The performed statistically analysis made it possible to reveal a significant effect (p < 0.05) of the calendar year only on the biomass of the trunks in the bark. The changes are most pronounced for trees in young and middle-aged stands, where the formation of the greatest radial growth occurs. For large-sized trunks, according to the simulation results, the biomass of the stems in the bark is not traced. In the coming decades, as a result of ongoing climate change, the decline in biomass and wood density of largesized stems should intensify. The revealed changes in biomass are accompanied by a decrease in wood density, which occurs as a result of an increase in the structure of the annual growth of looser and less dense early wood. Thus, in the context of accelerating growth rates of woody plants, the volume of trunks and wood stock should not be directly converted into deposited carbon, considering the historical values of conversion rations. This should also be considered when monitoring, modeling and using carbon and biomass in forests in the face of global change.

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