bluuebunny/crossref_metadata_2025 huggingface dataset:
Genetics of smoking and risk of clonal hematopoiesis
Authors: Levin Michael G. , Nakao Tetsushi , Zekavat Seyedeh M. , Koyama Satoshi , Bick Alexander G. , Niroula Abhishek , Ebert Benjamin , Damrauer Scott M. , Natarajan Pradeep
Published: May 2022

Clonal hematopoiesis of indeterminate potential (CHIP) and mosaic chromosomal alterations (mCAs) represent two forms of clonal hematopoiesis where clones bearing expanded somatic mutations have been linked to both oncologic and non-oncologic clinical outcomes including atherosclerosis and all-cause mortality. Epidemiologic studies have highlighted smoking as an important driver of somatic mutations across multiple tissues. However, establishing the causal role of smoking in clonal hematopoiesis has been limited by observational study designs, which may suffer from confounding and reverse-causality. We performed two complementary analyses to investigate the role of smoking in mCAs and CHIP. First, using an observational study design among UK Biobank participants, we confirmed strong associations between smoking and mCAs. Second, using two-sample Mendelian randomization, smoking was strongly associated with mCA but not with CHIP. Overall, these results support a causal association between smoking and mCAs and suggest smoking may variably shape the fitness of clones bearing somatic mutations.
Sparse representations of high dimensional neural data
Authors: Mody Sandeep K. , Rangarajan Govindan
Published: May 2022

Conventional Vector Autoregressive (VAR) modelling methods applied to high dimensional neural time series data result in noisy solutions that are dense or have a large number of spurious coefficients. This reduces the speed and accuracy of auxiliary computations downstream and inflates the time required to compute functional connectivity networks by a factor that is at least inversely proportional to the true network density. As these noisy solutions have distorted coefficients, thresholding them as per some criterion, statistical or otherwise, does not alleviate the problem. Thus obtaining a sparse representation of such data is important since it provides an efficient representation of the data and facilitates its further analysis. We propose a fast Sparse Vector Autoregressive Greedy Search (SVARGS) method that works well for high dimensional data, even when the number of time points is relatively low, by incorporating only statistically significant coefficients. In numerical experiments, our methods show high accuracy in recovering the true sparse model. The relative absence of spurious coefficients permits accurate, stable and fast evaluation of derived quantities such as power spectrum, coherence and Granger causality. Consequently, sparse functional connectivity networks can be computed, in a reasonable time, from data comprising tens of thousands of channels/voxels. This enables a much higher resolution analysis of functional connectivity patterns and community structures in such large networks than is possible using existing time series methods. We apply our method to EEG data where computed network measures and community structures are used to distinguish emotional states as well as to ADHD fMRI data where it is used to distinguish children with ADHD from typically developing children.
Three dimensional modeling of atrioventricular valves provides predictive guides for optimal choice of prosthesis
Authors: Sazzad Faizus , Goh Jin Hao , Ong Zhi Xian , Almsherqi Zakaria Ali Moh , Lakshminarasappa Satish R , Ramanathan Kollengode R , Kofidis Theo
Published: May 2022

Inaccuracies in intraoperative and preoperative measurements and estimations may lead to adverse outcomes such as patient-prosthesis mismatch. We aim to measure the relation between different dimensions of the atrioventricular valve complex in explanted porcine heart models. After a detailed physical morphology study, a cast of the explanted heart models was made using silicon-based materials. Digital models were obtained from three-dimensional scanning of the casts, showing the measured annulopapillary distance was 2.50 ± 0.18 cm, and 2.75 ± 0.36 cm for anterior and posterior papillary muscles of left ventricle, respectively. There was a significant linear association between the mitral annular circumference to anterior–posterior distance (p = 0.003, 95% CI 0.78–3.06), mitral annular circumference to interpapillary distance (p = 0.009, 95% CI 0.38–2.20), anterior–posterior distance to interpapillary distance (p = 0.02, 95% CI 0.10–0.78). Anterior–posterior distance appeared to be the most important predictor of mitral annular circumference compared to other measured distances. The mean length of the perpendicular distance of the tricuspid annulus, a, was 2.65 ± 0.54 cm; b was 1.77 ± 0.60 cm, and c was 3.06 ± 0.55 cm. Distance c was the most significant predictor for tricuspid annular circumference (p = 0.006, 95% CI 0.28–2.84). The anterior–posterior distance measured by three-dimensional scanning can safely be used to predict the annular circumference of the mitral valve. For the tricuspid valve, the strongest predictor for the circumference is the c-distance. Other measurements made from the positively correlated parameters may be extrapolated to their respective correlated parameters. They can aid surgeons in selecting the optimal prosthesis for the patients and improve procedural planning.
NAD(P)H fluorescence lifetime imaging of live intestinal nematodes reveals metabolic crosstalk between parasite and host
Authors: Liublin Wjatscheslaw , Rausch Sebastian , Leben Ruth , Lindquist Randall L. , Fiedler Alexander , Liebeskind Juliane , Beckers Ingeborg E. , Hauser Anja E. , Hartmann Susanne , Niesner Raluca A.
Published: May 2022

Infections with intestinal nematodes have an equivocal impact: they represent a burden for human health and animal husbandry, but, at the same time, may ameliorate auto-immune diseases due to the immunomodulatory effect of the parasites. Thus, it is key to understand how intestinal nematodes arrive and persist in their luminal niche and interact with the host over long periods of time. One basic mechanism governing parasite and host cellular and tissue functions, metabolism, has largely been neglected in the study of intestinal nematode infections. Here we use NADH (nicotinamide adenine dinucleotide) and NADPH (nicotinamide adenine dinucleotide phosphate) fluorescence lifetime imaging of explanted murine duodenum infected with the natural nematode Heligmosomoides polygyrus and define the link between general metabolic activity and possible metabolic pathways in parasite and host tissue, during acute infection. In both healthy and infected host intestine, energy is effectively produced, mainly via metabolic pathways resembling oxidative phosphorylation/aerobic glycolysis features. In contrast, the nematodes shift their energy production from balanced fast anaerobic glycolysis-like and effective oxidative phosphorylation-like metabolic pathways, towards mainly anaerobic glycolysis-like pathways, back to oxidative phosphorylation/aerobic glycolysis-like pathways during their different life cycle phases in the submucosa versus the intestinal lumen. Additionally, we found an increased NADPH oxidase (NOX) enzymes-dependent oxidative burst in infected intestinal host tissue as compared to healthy tissue, which was mirrored by a similar defense reaction in the parasites. We expect that, the here presented application of NAD(P)H-FLIM in live tissues constitutes a unique tool to study possible shifts between metabolic pathways in host-parasite crosstalk, in various parasitic intestinal infections.
Optimization of a molten iron scheduling problem with uncertain processing time using variable neighborhood search algorithm
Authors: Liu Linyu , Chang Zhiqi , Song Shiji
Published: May 2022

Punctuality of the steel-making scheduling is important to save steel production costs, but the processing time of the pretreatment process, which connects the iron- and steel-making stages, is usually uncertain. This paper presents a distributionally robust iron-steel allocation (DRISA) model to obtain a robust scheduling plan, where the distribution of the pretreatment time vector is assumed to belong to an ambiguity set which contains all the distributions with given first and second moments. This model aims to minimize the production objective by determining the iron-steel allocation and the completion time of each charge, while the constraints should hold with a certain probability under the worst-case distribution. To solve problems in large-scale efficiently, a variable neighborhood algorithm is developed to obtain a near-optimal solution in a short time. Experiments based on actual production data demonstrate its efficiency. Results also show the robustness of the DRISA model, i.e., the adjustment and delay of the robust schedule derived from the DRISA model are less than the nominal one.
Effects of the application of different improved materials on reclaimed soil structure and maize yield of Hollow Village in Loess Area
Authors: Liu Zhe , Zhang Yang , Sun Zenghui , Sun Yingying , Wang Huanyuan , Zhang Ruiqing
Published: May 2022

In order to solve the soil problem of poor structure and low fertility after the abandoned homestead reclamation of Hollow Village in Loess Area and to improve the quality of the reclaimed soil in Hollow Village, a five-year field experiment was conducted here. In this experiment, the following seven treatments were applied: no modified material (CK), maturing agent (TM), fly ash (TF), organic fertilizer (TO), maturing agent + fly ash (TMF), maturing agent + organic fertilizer (TMO) and fly ash + organic fertilizer (TFO), and the effects of different improved materials on soil properties and crop yield were studied. The results showed that: soil organic matter (SOM) and total nitrogen contents increased significantly after the application of different improved materials, which promoted the cementation and aggregation of water-stable microaggregates (< 0.25 mm), and the water-stable macroaggregates showed an increasing trend. In the 0–0.15 m soil layer, the proportion of water-stable macroaggregates under TM, TF, TO, TMF, TMO, and TFO treatment increased by 328.2%, 130.0%, 87.8%, 81.1%, 36.7%, and 12.2% compared with CK, respectively. Meanwhile, TF, TO, TMF, TMO, TFO treatments significantly increased the mean weight diameter (MWD) and geometric mean diameter (GMD) values, reduced soil bulk density, the stable aggregate index (ELT) and fractal dimension (D) values (P < 0.05), and the stability of soil structure and the capacity of soil moisture retention has been significantly improved. The SOM content had a significant positive correlation with MWD, GMD, and > 2 mm water-stable aggregates and a significant negative correlation with the ELT, D, and water-stable microaggregates. In particular, the organic–inorganic coupling treatment of TFO showed the highest SOM content, soil moisture content, water-stable macroaggregates and maize yield, which was the most appropriate amendment for improving the reclaimed soil structure and fertility of Hollow Village in Loess Area.
Potential protective effect against SARS-CoV-2 infection by APOE rs7412 polymorphism
Authors: Espinosa-Salinas Isabel , Colmenarejo Gonzalo , Fernández-Díaz Cristina M. , Gómez de Cedrón Marta , Martinez J. Alfredo , Reglero Guillermo , Ramírez de Molina Ana
Published: May 2022

The pandemic burden caused by the SARS-CoV-2 coronavirus constitutes a global public health emergency. Increasing understanding about predisposing factors to infection and severity is now a priority. Genetic, metabolic, and environmental factors can play a crucial role in the course and clinical outcome of COVID-19. We aimed to investigate the putative relationship between genetic factors associated to obesity, metabolism and lifestyle, and the presence and severity of SARS-CoV-2 infection. A total of 249 volunteers (178 women and 71 men, with mean and ± SD age of 49 ± 11 years) characterized for dietary, lifestyle habits and anthropometry, were studied for presence and severity of COVID-19 infection, and genotyped for 26 genetic variants related to obesity, lipid profile, inflammation, and biorhythm patterns. A statistically significant association was found concerning a protective effect of APOE rs7412 against SARS-CoV-2 infection (p = 0.039; OR 0.216; CI 0.084, 0.557) after correction for multiple comparisons. This protective effect was also ascribed to the APOɛ2 allele (p = 0.001; OR 0.207; CI 0.0796, 0.538). The genetic variant rs7412 resulting in ApoE2, genetic determinant of lipid and lipoprotein levels, could play a significant role protecting against SARS-CoV-2 infection.
Abnormal male reproduction and embryonic development induced by downregulation of a phospholipid fatty acid-introducing enzyme Lpgat1 in zebrafish
Authors: Shibata Takeaki , Kawana Hiroki , Nishino Yuri , Ito Yoshiko , Sato Hiroyasu , Onishi Hirofumi , Kano Kuniyuki , Inoue Asuka , Taketomi Yoshitaka , Murakami Makoto , Kofuji Satoshi , Nishina Hiroshi , Miyazawa Atsuo , Kono Nozomu , Aoki Junken
Published: May 2022

Phospholipids in the membrane consist of diverse pairs of fatty acids bound to a glycerol backbone. The biological significance of the diversity, however, remains mostly unclear. Part of this diversity is due to lysophospholipid acyltransferases (LPLATs), which introduce a fatty acid into lysophospholipids. The human genome has 14 LPLATs and most of them are highly conserved in vertebrates. Here, we analyzed the function of one of these enzymes, lysophosphatidylglycerol acyltransferase 1 (Lpgat1), in zebrafish. We found that the reproduction of heterozygous (lpgat1+/−) male mutants was abnormal. Crosses between heterozygous males and wild-type females produced many eggs with no obvious cleavage, whereas eggs produced by crosses between heterozygous females and wild-type males cleaved normally. Consistent with this, spermatozoa from heterozygous males had reduced motility and abnormal morphology. We also found that the occurrence of lpgat1 homozygous (lpgat1−/−) mutants was far lower than expected. In addition, downregulation of lpgat1 by morpholino antisense oligonucleotides resulted in severe developmental defects. Lipidomic analysis revealed that selective phospholipid species with stearic acid and docosahexaenoic acid were reduced in homozygous larvae and spermatozoa from heterozygotes. These results suggest that the specific phospholipid molecular species produced by Lpgat1 have an essential role in sperm fertilization and in embryonic development.
Gap coupled symmetric split ring resonator based near zero index ENG metamaterial for gain improvement of monopole antenna
Authors: Moniruzzaman Md. , Islam Mohammad Tariqul , Samsuzzaman Md. , M M. Salaheldeen , Sahar Norsuzlin Mohd , Al-Bawri Samir Salem , Almalki Sami H. A. , Alsaif Haitham , Islam Md. Shabiul
Published: May 2022

In this article, a symmetric split ring resonator (SRR) based metamaterial (MTM) is presented that exhibits three resonances of transmission coefficient (S21) covering S, C, and X-bands with epsilon negative (ENG) and near zero index properties. The proposed MTM is designed on an FR4 substrate with the copper resonator at one side formed with two square rings and one circular split ring. The two square rings are coupled together around the split gap of the outer ring, whereas two split semicircles are also coupled together near the split gaps. Thus, gap coupled symmetric SRR is formed, which helps to obtain resonances at 2.78 GHz, 7.7 GHz and 10.16 GHz with desired properties of the MTM unit cell. The MTM unit cell's symmetric nature helps reduce the mutual coupling effect among the array elements. Thus, different array of unit cells provides a similar response to the unit cell compared with numerical simulation performed in CST microwave studio and validated by measurement. The equivalent circuit is modelled for the proposed MTM unit cell in Advanced Design System (ADS) software, and circuit validation is accomplished by comparing S21 obtained in ADS with the same of CST. The effective medium ratio (EMR) of 10.7 indicates the compactness of the proposed MTM. A test antenna is designed to observe the effect of the MTM over it. Numerical analysis shows that the proposed MTM have an impact on the antenna when it is used as the superstrate and helps to increase the gain of the antenna by 95% with increased directivity. Thus, compact size, high EMR, negative permittivity, near zero permeability and refractive index makes this MTM suitable for S, C and X band applications, especially for antenna gain with directivity enhancement.
A systems approach discovers the role and characteristics of seven LysR type transcription factors in Escherichia coli
Authors: Rodionova Irina A. , Gao Ye , Monk Jonathan , Hefner Ying , Wong Nicholas , Szubin Richard , Lim Hyun Gyu , Rodionov Dmitry A. , Zhang Zhongge , Saier Milton H. , Palsson Bernhard O.
Published: May 2022

AlthoughEscherichia coliK-12 strains represent perhaps the best known model bacteria, we do not know the identity or functions of all of their transcription factors (TFs). It is now possible to systematically discover the physiological function of TFs inE. coliBW25113 using a set of synergistic methods; including ChIP-exo, growth phenotyping, conserved gene clustering, and transcriptome analysis. Among 47 LysR-type TFs (LTFs) found on theE. coliK-12 genome, many regulate nitrogen source utilization or amino acid metabolism. However, 19 LTFs remain unknown. In this study, we elucidated the regulation of seven of these 19 LTFs: YbdO, YbeF, YcaN, YbhD, YgfI, YiaU, YneJ. We show that: (1) YbdO (tentatively re-named CitR) regulation has an effect on bacterial growth at low pH with citrate supplementation. CitR is a repressor of theybdNMoperon and is implicated in the regulation of citrate lyase genes (citCDEFG); (2) YgfI (tentatively re-named DhfA) activates thedhaKLMoperon that encodes the phosphotransferase system, DhfA is involved in formate, glycerol and dihydroxyacetone utilization; (3) YiaU (tentatively re-named LpsR) regulates theyiaTgene encoding an outer membrane protein, andwaaPSBOJYZUoperon is also important in determining cell density at the stationary phase and resistance to oxacillin microaerobically; (4) YneJ, re-named here as PtrR, directly regulates the expression of the succinate-semialdehyde dehydrogenase, Sad (also known as YneI), and is a predicted regulator offnrS(a small RNA molecule).PtrR is important for bacterial growth in the presence ofl-glutamate and putrescine as nitrogen/energy sources; and (5) YbhD and YcaN regulate adjacent y-genes on the genome. We have thus established the functions for four LTFs and identified the target genes for three LTFs.
Identification of an elusive spliceogenic MYBPC3 variant in an otherwise genotype-negative hypertrophic cardiomyopathy pedigree
Authors: Torrado Mario , Maneiro Emilia , Lamounier Junior Arsonval , Fernández-Burriel Miguel , Sánchez Giralt Sara , Martínez-Carapeto Ana , Cazón Laura , Santiago Elisa , Ochoa Juan Pablo , McKenna William J. , Santomé Luis , Monserrat Lorenzo
Published: May 2022

The finding of a genotype-negative hypertrophic cardiomyopathy (HCM) pedigree with several affected members indicating a familial origin of the disease has driven this study to discover causative gene variants. Genetic testing of the proband and subsequent family screening revealed the presence of a rare variant in the MYBPC3 gene, c.3331−26T>G in intron 30, with evidence supporting cosegregation with the disease in the family. An analysis of potential splice-altering activity using several splicing algorithms consistently yielded low scores. Minigene expression analysis at the mRNA and protein levels revealed that c.3331−26T>G is a spliceogenic variant with major splice-altering activity leading to undetectable levels of properly spliced transcripts or the corresponding protein. Minigene and patient mRNA analyses indicated that this variant induces complete and partial retention of intron 30, which was expected to lead to haploinsufficiency in carrier patients. As most spliceogenic MYBPC3 variants, c.3331−26T>G appears to be non-recurrent, since it was identified in only two additional unrelated probands in our large HCM cohort. In fact, the frequency analysis of 46 known splice-altering MYBPC3 intronic nucleotide substitutions in our HCM cohort revealed 9 recurrent and 16 non-recurrent variants present in a few probands (≤ 4), while 21 were not detected. The identification of non-recurrent elusive MYBPC3 spliceogenic variants that escape detection by in silico algorithms represents a challenge for genetic diagnosis of HCM and contributes to solving a fraction of genotype-negative HCM cases.
Nobiletin ameliorates high fat-induced disruptions in rhythmic glucagon-like peptide-1 secretion
Authors: Martchenko Alexandre , Biancolin Andrew D. , Martchenko Sarah E. , Brubaker Patricia L.
Published: May 2022

The incretin hormone glucagon-like peptide-1 (GLP-1) is secreted by the intestinal L cell in response to nutrient intake. However, GLP-1 secretion also follows a circadian rhythm which is disrupted by the saturated fatty acid palmitate in vitro and high-fat diet (HFD) feeding in vivo. The flavonoid nobiletin is a clock enhancer which improves metabolic homeostasis. Therefore, the aim of this study was to elucidate whether and how nobiletin mitigates the negative effects of palmitate and HFD-feeding on rhythmic GLP-1 release. Pre-treatment of murine GLUTag L cells with palmitate dampened the GLP-1 secretory response at the normal peak of secretion, while nobiletin co-treatment restored GLP-1 secretion and upregulated the ‘metabolic pathway’ transcriptome. Mice fed a HFD also lost their GLP-1 secretory rhythm in association with markedly increased GLP-1 levels and upregulation of L cell transcriptional pathways related to ‘sensing’ and ‘transducing’ cellular stimuli at the normal peak of GLP-1 release. Nobiletin co-administration reduced GLP-1 levels to more physiological levels and upregulated L cell ‘oxidative metabolism’ transcriptional pathways. Furthermore, nobiletin improved colonic microbial 16S rRNA gene diversity and reduced the levels of Proteobacteria in HFD-fed mice. Collectively, this study establishes that nobiletin improves the normal rhythm in GLP-1 secretion following fat-induced disruption.
Persistence versus dynamical seasonal forecasts of cereal crop yields
Authors: Bento Virgílio A. , Russo Ana , Dutra Emanuel , Ribeiro Andreia F. S. , Gouveia Célia M. , Trigo Ricardo M.
Published: May 2022

Climate change is expected to have impacts on the balance of global food trade networks and food security. Thus, seasonal forecasts of precipitation and temperature are an essential tool for stakeholders to make timely choices regarding the strategies required to maximize their expected cereal yield outcomes. The availability of state-of-the-art seasonal forecasts such as the European Centre for Medium-Range Weather Forecasts (ECMWF) system 5 (SEAS5) may be an asset to help decision making. However, uncertainties and reduced skill may hamper the use of seasonal forecasts in several applications. Hence, in this work, we aim to understand the added value of such dynamical forecasts when compared to persistent anomalies of climate conditions used to predict the production of wheat and barley yields. With that in mind, empirical models relating annual wheat and barley yields in Spain to monthly values of precipitation and temperature are developed by taking advantage of ECMWF ERA5 reanalysis. Then, dynamical and persistence forecasts are issued at different lead times, and the skill of the subsequent forecasted yield is verified through probabilistic metrics. The results presented in this study demonstrate two different outcomes: (1) wheat and barley yield anomaly forecasts (dynamical and persistent) start to gain skill later in the season (typically from April onwards); and (2) the added value of using the SEAS5 forecast as an alternative to persistence ranges from 6 to 16%, with better results in the southern Spanish regions.
Short term treatment with a cocktail of rapamycin, acarbose and phenylbutyrate delays aging phenotypes in mice
Authors: Jiang Zhou , Wang Juan , Imai Denise , Snider Tim , Klug Jenna , Mangalindan Ruby , Morton John , Zhu Lida , Salmon Adam B. , Wezeman Jackson , Hu Jiayi , Menon Vinal , Marka Nicholas , Neidernhofer Laura , Ladiges Warren
Published: May 2022

Pharmaceutical intervention of aging requires targeting multiple pathways, thus there is rationale to test combinations of drugs targeting different but overlapping processes. In order to determine if combining drugs shown to extend lifespan and healthy aging in mice would have greater impact than any individual drug, a cocktail diet containing 14 ppm rapamycin, 1000 ppm acarbose, and 1000 ppm phenylbutyrate was fed to 20-month-old C57BL/6 and HET3 4-way cross mice of both sexes for three months. Mice treated with the cocktail showed a sex and strain-dependent phenotype consistent with healthy aging including decreased body fat, improved cognition, increased strength and endurance, and decreased age-related pathology compared to mice treated with individual drugs or control. The severity of age-related lesions in heart, lungs, liver, and kidney was consistently decreased in mice treated with the cocktail compared to mice treated with individual drugs or control, suggesting an interactive advantage of the three drugs. This study shows that a combination of three drugs, each previously shown to enhance lifespan and health span in mice, is able to delay aging phenotypes in middle-aged mice more effectively than any individual drug in the cocktail over a 3-month treatment period.
Increased proinflammatory cytokines in tears correspond with conjunctival SARS-CoV-2 positivity in symptomatic COVID-19 patients
Authors: Niedźwiedź Anna , Kawa Miłosz , Pius-Sadowska Ewa , Kuligowska Agnieszka , Ziontkowska Alicja , Wrzałek Dawid , Wiącek Marta P. , Parczewski Miłosz , Ossowski Andrzej , Zielińska Grażyna , Safranow Krzysztof , Kozłowski Krzysztof , Machaliński Bogusław , Machalińska Anna
Published: May 2022

Tear fluid cytokine levels may serve as biomarkers of innate immune system response against SARS-CoV-2 infection. Therefore, our aim was to analyze panel of selected inflammatory cytokines in tears of COVID-19 patients in relation to presence of SARS-CoV-2 viral load in conjunctival secretions. In this study concentrations of TNF-α, IL-1b, IL-2, IL-4, IL-5, IL-6, IL-8, IL-10, IL-12 p70, GM-CSF, and IFN-γ were determined by a magnetic bead assay in tear film collected from 232 symptomatic COVID-19 patients. SARS-CoV-2 ocular infection was confirmed based on positive conjunctival swab-based RT-PCR testing. Viral RNA in conjunctival sac was detected in 21 patients (9%). No relation between presence and the duration of ophthalmic symptoms and SARS-CoV-2 infection detected in conjunctival secretions was found. The tear film concentrations of IFN-γ, TNF-α, IL-5, IL-8 and GM-CSF were found to be significantly greater among patients with positive conjunctival swab results as compared to the group negative for SARS-CoV-2 in conjunctival sac. Our current data depict a group of inflammatory mediators in human tears, which may play a significant role in ocular pathology of SARS-CoV-2 conjunctival infection.
Machine learning-based prediction of relapse in rheumatoid arthritis patients using data on ultrasound examination and blood test
Authors: Matsuo Hidemasa , Kamada Mayumi , Imamura Akari , Shimizu Madoka , Inagaki Maiko , Tsuji Yuko , Hashimoto Motomu , Tanaka Masao , Ito Hiromu , Fujii Yasutomo
Published: May 2022

Recent effective therapies enable most rheumatoid arthritis (RA) patients to achieve remission; however, some patients experience relapse. We aimed to predict relapse in RA patients through machine learning (ML) using data on ultrasound (US) examination and blood test. Overall, 210 patients with RA in remission at baseline were dichotomized into remission (n = 150) and relapse (n = 60) based on the disease activity at 2-year follow-up. Three ML classifiers [Logistic Regression, Random Forest, and extreme gradient boosting (XGBoost)] and data on 73 features (14 US examination data, 54 blood test data, and five data on patient information) at baseline were used for predicting relapse. The best performance was obtained using the XGBoost classifier (area under the receiver operator characteristic curve (AUC) = 0.747), compared with Random Forest and Logistic Regression (AUC = 0.719 and 0.701, respectively). In the XGBoost classifier prediction, ten important features, including wrist/metatarsophalangeal superb microvascular imaging scores, were selected using the recursive feature elimination method. The performance was superior to that predicted by researcher-selected features, which are conventional prognostic markers. These results suggest that ML can provide an accurate prediction of relapse in RA patients, and the use of predictive algorithms may facilitate personalized treatment options.
Electron liquid state in the spin-$$\frac{1}{2}$$ anisotropic Kondo lattice
Authors: Karnaukhov Igor N.
Published: May 2022

In the framework of the mean field approach, we provide analytical and numerical solution of the spin-$$\frac{1}{2}$$

1
2

anisotropic Kondo lattice for arbitrary dimension at half filling. Nontrivial solution for the amplitude of the field opens a gap in the fermion spectrum of an electron liquid in which local moments on the lattice sites are realized. The ground state in the insulator state is determined by a static $${\mathbb {Z}}_2$$

Z
2

field of local moments, which forms the lattice with a double cell, conduction electrons move in this field. Due to hybridization between electron states a large Fermi surface is formed in the Kondo lattice. A gap in the quasi-particle spectrum is calculated depending on the magnitudes of exchange integrals for the simple lattices with different dimension. The proposed approach is also valid for describing the Kondo lattice with weak anisotropy of the exchange interaction, which makes it possible to study the behavior of the spin-$$\frac{1}{2}$$

1
2

Kondo lattice with an isotropic exchange interaction.
Allergic rhinitis is associated with thromboembolic disease in pregnancy
Authors: Wu Chia-Ta , Tsao Chien-Han , Chen Kuan-Ting , Lee Yu-Tzu , Ku Min-Sho
Published: May 2022

Finding the risk factors for thromboembolic (TE) disease and preventing its development in pregnant women is important. Allergic rhinitis (AR) is a common chronic disease. We aim to find if AR is a risk factor. From 2004 to 2011, 55,057 pregnant women were recruited from a Taiwan database. They were grouped into AR and non-AR groups. The rate of TE and venous complications during pregnancy and 60 days after childbirth were compared between non-AR and the AR group. Those with AR diagnosed both before and after childbirth, meaning AR was not changed during pregnancy, the rates of TE (OR 2.64) and venous complications (OR 1.35) were higher compared to non-AR subjects. In those who underwent cesarean delivery, the rate was also higher in group 3 (OR 4.14). Those with AR before childbirth, without after, meaning AR was well controlled during pregnancy, the rate of TE was not higher than that of the non-AR subjects. Pregnant women with AR have an increased rate of TE. An increased rate of venous complications in these subjects might explain the increase in TE. If AR is well controlled during pregnancy, the rate of TE does not appear to increase.
Xanthomonas hortorum pv. gardneri TAL effector AvrHah1 is necessary and sufficient for increased persistence of Salmonella enterica on tomato leaves
Authors: Cowles Kimberly N. , Block Anna K. , Barak Jeri D.
Published: May 2022

Salmonella enterica is ubiquitous in the plant environment, persisting in the face of UV stress, plant defense responses, desiccation, and nutrient limitation. These fluctuating conditions of the leaf surface result in S. enterica population decline. Biomultipliers, such as the phytopathogenic bacterium Xanthomonas hortorum pv. gardneri (Xhg), alter the phyllosphere to the benefit of S. enterica. Specific Xhg-dependent changes to this niche that promote S. enterica persistence remain unclear, and this work focuses on identifying factors that lead to increased S. enterica survival on leaves. Here, we show that the Xhg transcription activator-like effector AvrHah1 is both necessary and sufficient for increased survival of S. enterica on tomato leaves. An Xhg avrHah1 mutant fails to influence S. enterica survival while addition of avrHah1 to X. vesicatoria provides a gain of function. Our results indicate that although Xhg stimulates a robust immune response from the plant, AvrHah1 is not required for these effects. In addition, we demonstrate that cellular leakage that occurs during disease is independent of AvrHah1. Investigation of the interaction between S. enterica, Xhg, and the plant host provides information regarding how an inhospitable environment changes during infection and can be transformed into a habitable niche.
Home intervention for children and adolescents with unilateral trans-radial and partial carpal reduction deficiencies
Authors: Lukaszek Jessica L. , Borrell Jordan A. , Cortes Claudia , Zuniga Jorge M.
Published: May 2022

Current training interventions assessing pediatric functional motor skills do not account for children and adolescents with upper limb reductions who utilize a prosthesis. Prosthesis rejection showed that 1 out of 5 prosthesis users will reject their prosthesis due to lack of durability, lack of function, not meeting the participant’s needs, perceived lack of need, and medical restrictions indicating that prosthetic users believed they were more functional without the device. It was hypothesized that an 8-week Home Intervention program will result in significant improvements in gross manual dexterity, bimanual coordination, and the functional activities performed during the program. It was also hypothesized that the novel Prosthesis Measurement of Independent Function (PMIF) score will reflect the Home Intervention performance improvements. Five pediatric participants (ages 5–19 years) with congenital upper limb reductions were fitted with a 3D printed upper extremity prosthesis for their affected limb. Participants then completed the 8-week Home Intervention which included Training activities completed 2×/week for 8 weeks and Non-Training activities completed only at week 1 and week 8. Participant’s times were recorded along with each participant receiving a PMIF score ranging from 0 = unable to complete activity, to 7 = complete independence with activity completion. Results showed a decrease in overall averaged activity times amongst all activities. For all activities performed, individual averaged time decreased with the exception of Ball Play which increased over the 8-week intervention period. There was significant interaction for Home Intervention performance with F = 2.904 (p = 0.003). All participants increased their PMIF scores to 7 (complete independence) at the end of the 8 week intervention period. Decreases in time averages and increases in PMIF scores indicate that learning and functional use of the prostheses have occurred amongst the pediatric participants.
Experimental evidence of shear waves in fractional viscoelastic rheological models
Authors: Gomez Antonio , Callejas Antonio , Rus Guillermo , Saffari Nader
Published: May 2022

Fractional viscoelastic rheological models, such as the Kelvin Voigt Fractional Derivative model, have been proposed in the literature for modelling shear wave propagation in soft tissue. In this article, our previously developed wave propagation model for transluminal propagation based on a Kelvin Voigt Fractional Derivative wave equation is experimentally validated. The transluminal procedure uses the transmission and detection of shear waves through the luminal wall. The model was compared against high-speed camera observations in translucent elastography phantoms with similar viscoelastic properties to prostate tissue. An ad hoc cross-correlation procedure was used to reconstruct the angular displacement from the high-speed camera observations. Rheometry and shear wave elastography were used for characterising the shear wave velocity dispersion curve for the phantoms. Fractional viscoelastic properties were derived after fitting the dispersion curve to its analytical expression. Propagation features and amplitude spectra from simulations and high-speed camera observations were compared. The obtained results indicate that the model replicates the experimental observations with acceptable accuracy. The model presented here provides a useful tool to model transluminal procedures based on wave propagation and its interaction with the mechanical properties of the tissue outside the lumen.
Hepatitis B virus (HBV) serological patterns among the HBsAg negative hospital attendees screened for immunization
Authors: Kafeero Hussein Mukasa , Ndagire Dorothy , Ocama Ponsiano , Kato Charles Drago , Wampande Eddie , Walusansa Abdul , Kajumbula Henry , Kateete David , Sendagire Hakim
Published: May 2022

The Hepatitis B virus (HBV) is a highly infectious virus and is endemic in Uganda. It is one of the major etiological agents for liver diseases including liver cancer. In this work, we evaluated the prevalence of the HBV serological markers and the associated socio-demographic factors among hepatitis B surface antigen (HBsAg) seronegative persons screened during routine immunization against the virus in eastern Uganda. Data on the socio-demographic characteristics were collected using a structured questionnaire, while that on the serological markers were obtained from serum samples and evaluated by using the 5-panel HBV One Step Hepatitis B Virus Combo Test Device (FastepR, HBV-P43M). The following markers were evaluated by the panel: HBsAg, HBsAb, HBcAb, and HBeAb. Data were analyzed using SPSS (version 26), and multinomial logistic regression was used to elicit the adjusted odds ratio. All the analysis were performed at a 95% confidence limit, and a P value ≤ 0.05 was considered significant. The 424 participants included in this study were mainly female (62.3%), married (55.4%) and aged 30 years and above (54.2%). The seropositivity of the HBsAb, HBeAb, HBcAb marker prevalence rates was 48(11.3%), 73(17.2%) and 45(10.6%) respectively. The majority of the participants (327, 77.1%) did not present with any marker. Married paricipants were significantly associated with reduced HBsAb seropositvity rate, whereas young people aged 18–29 years were associated the with increased odds of HBsAb seropositivity (p < 0.05). Male participants were significantly associated with the HBeAb and HBcAb seropositivity (p < 0.05). Similarly, contact with an HBV infected person was significantly associated with HBeAb and HBcAb seropositivity (p < 0.05). Further still, blood transfusion was significantly associated with the increased risk of HBcAb seropositivity (P < 0.05). This study has revealed a prevalence of HBV serological markers among the HBsAg seronegative persons in this community and an increased risk of transmission of the virus in the community. Our findings have key consequences pertaining the interventions that are pertinent in the control and prevention of the spread of the virus among apparently health persons.
Individual and joint estimation of humpback whale migratory patterns and their environmental drivers in the Southwest Atlantic Ocean
Authors: Bedriñana-Romano Luis , Zerbini Alexandre N. , Andriolo Artur , Danilewicz Daniel , Sucunza Federico
Published: May 2022

Humpback whales (Megaptera novaeangliae) perform seasonal migrations from high latitude feeding grounds to low latitude breeding and calving grounds. Feeding grounds at polar regions are currently experiencing major ecosystem modifications, therefore, quantitatively assessing species responses to habitat characteristics is crucial for understanding how whales might respond to such modifications. We analyzed satellite telemetry data from 22 individual humpback whales in the Southwest Atlantic Ocean (SWA). Tagging effort was divided in two periods, 2003–2012 and 2016–2019. Correlations between whale’s movement parameters and environmental variables were used as proxy for inferring behavioral responses to environmental variation. Two versions of a covariate-driven continuous-time correlated random-walk state-space model, were fitted to the data: i) Population-level models (P-models), which assess correlation parameters pooling data across all individuals or groups, and ii) individual-level models (I-models), fitted independently for each tagged whale. Area of Restricted Search behavior (slower and less directionally persistent movement, ARS) was concentrated at cold waters south of the Polar Front (~ 50°S). The best model showed that ARS was expected to occur in coastal areas and over ridges and seamounts. Ice coverage during August of each year was a consistent predictor of ARS across models. Wind stress curl and sea surface temperature anomalies were also correlated with movement parameters but elicited larger inter-individual variation. I-models were consistent with P-models’ predictions for the case of females accompanied by calves (mothers), while males and those of undetermined sex (males +) presented more variability as a group. Spatial predictions of humpback whale behavioral responses showed that feeding grounds for this population are concentrated in the complex system of islands, ridges, and rises of the Scotia Sea and the northern Weddell Ridge. More southernly incursions were observed in recent years, suggesting a potential response to increased temperature and large ice coverage reduction observed in the late 2010s. Although, small sample size and differences in tracking duration precluded appropriately testing predictions for such a distributional shift, our modelling framework showed the efficiency of borrowing statistical strength during data pooling, while pinpointing where more complexity should be added in the future as additional data become available.
Promoting a growth mindset decreases behavioral self-handicapping among students who are on the fixed side of the mindset continuum
Authors: Török Lilla , Szabó Zsolt Péter , Orosz Gábor
Published: May 2022

The present study examined the interplay between chronic intelligence beliefs, manipulated intelligence beliefs and self-handicapping processes. Prior studies showed that holding more of a fixed intelligence theory makes one vulnerable to resorting to self-protective mechanisms such as self-handicapping, while growth intelligence mindset can serve as a protective factor for self-handicapping. However, no prior studies have examined the potential interaction between pre-experimental intelligence beliefs, the manipulation of intelligence mindsets and behavioral self-handicapping. Although in our student sample (N = 101) there was no main effect of the mindset manipulations, participants with more of an initial fixed mindset benefited a lot from a brief growth mindset manipulation and displayed the lowest levels of behavioral self-handicapping. The mindset manipulation had less effect on self-handicapping of originally more of a growth-mindset individuals. These laboratory results demonstrate the benefits of growth mindset triggers which can be especially beneficial to reduce self-handicapping of young adults with more of a fixed mindset in educational settings.
Investigating the clinical implication of corneometer and mexameter readings towards objective, efficient evaluation of psoriasis vulgaris severity
Authors: Hsu Chao-Kai , Cheng Nan-Yu , Yang Chao-Chun , Yen Yun-Yo , Tseng Sheng-Hao
Published: May 2022

In clinical settings, although Psoriasis Area and Severity Index (PASI) scoring system can provide a quick visual assessment of the severity of psoriasis vulgaris, there is still a strong demand for higher efficiency and accuracy in quantifying the inflammation status of psoriatic lesions. Currently, there are already commercial systems, such as the Courage + Khazaka Corneometer and Mexameter that measure skin capacitance and optical reflectance, for conveniently quantifying the status of skin barrier function and erythema of skin. Despite numerous comparisons of the Courage + Khazaka system with the PASI scoring system, they are rarely compared on parity with diffuse reflectance spectroscopy (DRS) based systems. In this study, we employed a custom-built DRS system shown to be able to determine the skin water-protein binding status and the hemoglobin concentration, and we performed cross-validation of the DRS measurement results with the readings derived from the Corneometer and Mexameter as well as a portion of the PASI scores. Our results revealed that the erythema readings from the Mexameter were a good representation of skin oxygenated hemoglobin but not the deoxygenated hemoglobin. On the other hand, the dermatologists recruited in this study were inclined to rate higher scores on the “erythema” category as skin’s deoxygenated hemoglobin level was higher. Thus, the Mexameter derived erythema readings may not be coherent with the PASI erythema scores. Further, the Corneometer derived skin capacitance readings were well correlated to the PASI “desquamation” and “thickness” scores, while the PASI “desquamation” evaluation was a dominating factor contributing to the DRS deduced water-protein binding status. We conclude that the DRS method could be a valuable addition to existing skin capacitance/reflectance measurement systems and the PASI scoring system toward achieving a more efficient and objective clinical psoriasis vulgaris severity evaluation.
Investigation of role of CpG methylation in some epithelial mesenchymal transition gene in a chemoresistant ovarian cancer cell line
Authors: Alghamian Yaman , Soukkarieh Chadi , Abbady Abdul Qader , Murad Hossam
Published: May 2022

Ovarian cancer is one of the lethal gynecologic cancers. Chemoresistance is an essential reason for treatment failure and high mortality. Emerging evidence connects epithelial-mesenchymal transition (EMT) like changes and acquisition of chemoresistance in cancers. Including EMT, DNA methylation influences cellular processes. Here, EMT-like changes were investigated in cisplatin-resistant A2780 ovarian cancer cells (A2780cis), wherein role of DNA methylation in some EMT genes regulations was studied. Cell viability assay was carried out to test the sensitivity of A2780, and A2780cis human cancer cell lines to cisplatin. Differential mRNA expression of EMT markers using qPCR was conducted to investigate EMT like changes. CpG methylation role in gene expression regulation was investigated by 5-azacytidine (5-aza) treatment. DNA methylation changes in EMT genes were identified using Methylscreen assay between A2780 and A2780cis cells. In order to evaluate if DNA methylation changes are causally underlying EMT, treatment with 5-aza followed by Cisplatin was done on A2780cis cells. Accordingly, morphological changes were studied under the microscope, whereas EMT marker’s gene expression changes were investigated using qPCR. In this respect, A2780cis cell line has maintained its cisplatin tolerance ability and exhibits phenotypic changes congruent with EMT. Methylscreen assay and qPCR study have revealed DNA hypermethylation in promoters of epithelial adhesion molecules CDH1 and EPCAM in A2780cis compared to the cisplatin-sensitive parental cells. These changes were concomitant with gene expression down-regulation. DNA hypomethylation associated with transcription up-regulation of the mesenchymal marker TWIST2 was observed in the resistant cells. Azacytidine treatment confirmed DNA methylation role in regulating gene expression of CDH1, EPCAM and TWIST2 genes. A2780cis cell line undergoes EMT like changes, and EMT genes are regulated by DNA methylation. To that end, a better understanding of the molecular alterations that correlate with chemoresistance may lead to therapeutic benefits such as chemosensitivity restoration.