Rheology of Active-Particle Suspensions

We study the interplay of activity, order and flow through a set of coarse-grained equations governing the hydrodynamic velocity, concentration and stress fields in a suspension of active, energy-dissipating particles. We make several predictions for the rheology of such systems, which can be tested on bacterial suspensions, cell extracts with motors and filaments, or artificial machines in a fluid. The phenomena of cytoplasmic streaming, elastotaxis and active mechanosensing find natural explanations within our model.Comment: 3 eps figures, submitted to Phys Rev Let

Numerical approximation of the shallow water equations with coriolis source term

We investigate in this work a class of numerical schemes dedicated to the non-linear Shallow Water equations with topography and Coriolis force. The proposed algorithms rely on Finite Volume approximations formulated on collocated and staggered meshes, involving appropriate diffusion terms in the numerical fluxes, expressed as discrete versions of the linear geostrophic balance. It follows that, contrary to standard Finite-Volume approaches, the linear versions of the proposed schemes provide a relevant approximation of the geostrophic equilibrium. We also show that the resulting methods ensure semi-discrete energy estimates. Numerical experiments exhibit the efficiency of the approach in the presence of Coriolis force close to the geostrophic balance, especially at low Froude number regimes

B3GALNT2 mutations associated with non-syndromic autosomal recessive intellectual disability reveal a lack of genotype-phenotype associations in the muscular dystrophy-dystroglycanopathies.

BACKGROUND: The phenotypic severity of congenital muscular dystrophy-dystroglycanopathy (MDDG) syndromes associated with aberrant glycosylation of α-dystroglycan ranges from the severe Walker-Warburg syndrome or muscle-eye-brain disease to mild, late-onset, isolated limb-girdle muscular dystrophy without neural involvement. However, muscular dystrophy is invariably found across the spectrum of MDDG patients. METHODS: Using linkage mapping and whole-exome sequencing in two families with an unexplained neurodevelopmental disorder, we have identified homozygous and compound heterozygous mutations in B3GALNT2. RESULTS: The first family comprises two brothers of Dutch non-consanguineous parents presenting with mild ID and behavioral problems. Immunohistochemical analysis of muscle biopsy revealed no significant aberrations, in line with the absence of a muscular phenotype in the affected siblings. The second family includes five affected individuals from an Iranian consanguineous kindred with mild-to-moderate intellectual disability (ID) and epilepsy without any notable neuroimaging, muscle, or eye abnormalities. Complementation assays of the compound heterozygous mutations identified in the two brothers had a comparable effect on the O-glycosylation of α-dystroglycan as previously reported mutations that are associated with severe muscular phenotypes. CONCLUSIONS: In conclusion, we show that mutations in B3GALNT2 can give rise to a novel MDDG syndrome presentation, characterized by ID associated variably with seizure, but without any apparent muscular involvement. Importantly, B3GALNT2 activity does not fully correlate with the severity of the phenotype as assessed by the complementation assay

Estimation of Fracture Toughness of Anisotropic Rocks by Semi-Circular Bend (SCB) Tests Under Water Vapor Pressure

In order to investigate the influence of water vapor pressure in the surrounding environment on mode I fracture toughness (KIc) of rocks, semi-circular bend (SCB) tests under various water vapor pressures were conducted. Water vapor is one of the most effective agents which promote stress corrosion of rocks. The range of water vapor pressure used was 10−2 to 103 Pa, and two anisotropic rock types, African granodiorite and Korean granite, were used in this work. The measurement of elastic wave velocity and observation of thin sections of these rocks were performed to investigate the microstructures of the rocks. It was found that the distribution of inherent microcracks and grains have a preferred orientation. Two types of specimens in different orientations, namely Type-1 and Type-3, were prepared based on the anisotropy identified by the differences in the elastic wave velocity. KIc of both rock types was dependent on the water vapor pressure in the surrounding environment and decreased with increasing water vapor pressure. It was found that the degree of the dependence is influenced by the orientation and density of inherent microcracks. The experimental results also showed that KIc depended on the material anisotropy. A fracture process was discussed on the basis of the geometry of fractures within fractured specimens visualized by the X-ray computed tomography (CT) method. It was concluded that the dominant factor causing the anisotropy of KIc is the distribution of grains rather than inherent microcracks in these rocks

Система анализа геологических карт с помощью инструментов компьютерного зрения и машинного обучения

Несколько областей компьютерного зрения было исследовано в данной работе для того, чтобы разработать два модуля системы анализа структурных геологических карт – модуль анализа изображений и модуль исправления результатов анализа. Ряд различных современных методов машинного и глубокого обучения был применен на практике. Все подходы были оценены на синтетической выборке. На тестовой выборке были рассчитаны метрики mAP, IOU, F1 score.Several areas of computer vision were researched in order to develop two modules of a structural maps analysis system – image analysis and results correction modules. Multiple modern machine learning and deep learning methods were applied in this master’s thesis, such as. Different approaches were tested in the development process. All of them were validated on synthetic data. Three evaluation metrics (mAP, IOU, F1 score) were calculated during validation

Evaluation of Mode I Fracture Toughness Assisted by the Numerical Determination of K-Resistance

The fracture toughness of a rock often varies depending on the specimen shape and the loading type used to measure it. To investigate the mode I fracture toughness using semi-circular bend (SCB) specimens, we experimentally studied the fracture toughness using SCB and chevron bend (CB) specimens, the latter being one of the specimens used extensively as an International Society for Rock Mechanics (ISRM) suggested method, for comparison. The mode I fracture toughness measured using SCB specimens is lower than both the level I and level II fracture toughness values measured using CB specimens. A numerical study based on discontinuum mechanics was conducted using a two-dimensional distinct element method (DEM) for evaluating crack propagation in the SCB specimen during loading. The numerical results indicate subcritical crack growth as well as sudden crack propagation when the load reaches the maximum. A K-resistance curve is drawn using the crack extension and the load at the point of evaluation. The fracture toughness evaluated by the K-resistance curve is in agreement with the level II fracture toughness measured using CB specimens. Therefore, the SCB specimen yields an improved value for fracture toughness when the increase of K-resistance with stable crack propagation is considered

The status of hepatitis C virus infection among people who inject drugs in the Middle East and North Africa.

BACKGROUND AND AIMS: People who inject drugs (PWID) are a key population at high risk of hepatitis C virus (HCV) infection. The aim of this study was to delineate the epidemiology of HCV in PWID in the Middle East and North Africa (MENA). METHODS: Syntheses of data were conducted on the standardized and systematically assembled databases of the MENA HCV Epidemiology Synthesis Project, 1989-2018. Random-effects meta-analyses and meta-regressions were performed. Meta-regression variables included country, study site, year of data collection and year of publication [to assess trends in HCV antibody prevalence over time], sample size and sampling methodology. Numbers of chronically infected PWID across MENA were estimated. The Shannon Diversity Index was calculated to assess genotype diversity. RESULTS: Based on 118 HCV antibody prevalence measures, the pooled mean prevalence in PWID for all MENA was 49.3% [95% confidence interval (CI) = 44.4-54.1%]. The country-specific pooled mean ranged from 21.7% (95% CI = 4.9-38.6%) in Tunisia to 94.2% (95% CI = 90.8-96.7%) in Libya. An estimated 221 704 PWID were chronically infected, with the largest numbers found in Iran at 68 526 and in Pakistan at 46 554. There was no statistically significant evidence for a decline in HCV antibody prevalence over time. Genotype diversity was moderate (Shannon Diversity Index of 1.01 out of 1.95; 52.1%). The pooled mean percentage for each HCV genotype was highest in genotype 3 (42.7%) and in genotype 1 (35.9%). CONCLUSION: Half of people who inject drugs in the Middle East and North Africa appear to have ever been infected with hepatitis C virus, but there are large variations in antibody prevalence among countries. In addition to > 200 000 chronically infected current people who inject drugs, there is an unknown number of people who no longer inject drugs who may have acquired hepatitis C virus during past injecting drug use. Harm reduction services must be expanded, and innovative strategies need to be employed to ensure accessibility to hepatitis C virus testing and treatment

Diagnostic Accuracy of Age and Alarm Symptoms for Upper GI Malignancy in Patients with Dyspepsia in a GI Clinic: A 7-Year Cross-Sectional Study

<div><h3>Objectives</h3><p>We investigated whether using demographic characteristics and alarm symptoms can accurately predict cancer in patients with dyspepsia in Iran, where upper GI cancers and <em>H. pylori</em> infection are common.</p> <h3>Methods</h3><p>All consecutive patients referred to a tertiary gastroenterology clinic in Tehran, Iran, from 2002 to 2009 were invited to participate in this study. Each patient completed a standard questionnaire and underwent upper gastrointestinal endoscopy. Alarm symptoms included in the questionnaire were weight loss, dysphagia, GI bleeding, and persistent vomiting. We used logistic regression models to estimate the diagnostic value of each variable in combination with other ones, and to develop a risk-prediction model.</p> <h3>Results</h3><p>A total of 2,847 patients with dyspepsia participated in this study, of whom 87 (3.1%) had upper GI malignancy. Patients reporting at least one of the alarm symptoms constituted 66.7% of cancer patients compared to 38.9% in patients without cancer (p<0.001). Esophageal or gastric cancers in patients with dyspepsia was associated with older age, being male, and symptoms of weight loss and vomiting. Each single predictor had low sensitivity and specificity. Using a combination of age, alarm symptoms, and smoking, we built a risk-prediction model that distinguished between high-risk and low-risk individuals with an area under the ROC curve of 0.85 and acceptable calibration.</p> <h3>Conclusions</h3><p>None of the predictors demonstrated high diagnostic accuracy. While our risk-prediction model had reasonable accuracy, some cancer cases would have remained undiagnosed. Therefore, where available, low cost endoscopy may be preferable for dyspeptic older patient or those with history of weight loss.</p> </div