bluuebunny/crossref_metadata_2025_split huggingface dataset:
Accessibility of protected natural areas of regional significance: a case study from Samara Oblast, Russia
Authors: Sidorov A A , Kudinova G E , Kostina N V 
Published: July 2021

Abstract
A significant role is assigned to the preservation of natural areas in the paradigm of sustainable development both in the international and regional aspects. Protected natural areas of regional importance make it possible to solve the problem of the preservation of natural ecosystems. The aim of the research is to establish for the municipal districts of Samara Oblast: dynamics, formation features and provision of PAs of regional significance. In the course of the study, on the basis of analysis, logical presentation, and statistical research, the authors established: the dynamics, features of the formation and provision of the municipal districts of Samara Oblast with specially protected natural areas of regional significance. The authors show a significant variability in areas, specific value and provision of the local population with specially protected natural areas, the relationship of individual parameters. The authors also built a rating and compiled a classification of municipal districts according to the given indicators. The authors identified the categories of municipal districts with a high, medium and low share of specially protected natural areas in the total area of the subregional area and the provision of the population with protected areas. The authors studied various options or models of compensatory benefits and environmental costs of municipal areas, taking into account specially protected natural areas of federal significance and the influence of the urban environment. The results of the analysis make it possible to use the obtained materials for making current managerial decisions in the interaction of regional environmental authorities with the administrations of municipal districts, for correcting the prospective scheme for the development of specially protected natural areas of regional significance, and for modernizing the development strategies of territories.
Program-targeted land reclamation In Samara Oblast (Russia)
Authors: Sidorov A A , Kudinova G E , Kostina N V , Kudinov A K 
Published: July 2021

Abstract
In the article, the authors consider the current state and a number of measures aimed at solving the problems of land reclamation of agricultural lands in Samara Oblast. A feature of the implementation of the land reclamation program on a regional scale is the use of the program-targeted method and issues of state stimulation of its development, as well as the possibility of attracting extrabudgetary funds for the implementation of investment projects. Such a program is ultimately aimed at increasing the volume of crop and livestock production, as well as preserving existing and creating new jobs. In the article, the authors assess the objectives, tactical indicators, resource support and the course of implementation of state programs for land reclamation support in Samara Oblast. The authors note that during the study period in Samara Region, modernization of existing reclamation systems was carried out, new irrigation systems were built, and previously abandoned agricultural land was restored. As part of targeted funding, the state provides grants for the development of design estimates for the implementation of investment projects in the field of land reclamation. The authors believe that, in general, the progress of the implementation of the state program of land reclamation should be considered very effective.
Macrozoobenthos communities in the Kuybyshev reservoir Priplotinnyi Reach: long-term dynamics
Authors: Zinchenko T D , Abrosimova E V , Golovatyuk L V 
Published: July 2021

Abstract
The authors analyzed the dynamics of benthic communities in the Kuybyshev Reservoir Priplotinnyi Reach, over a long-term observation period 1958-2020. The authors note a certain frequency of changes in the ratio of macrozoobenthos coenoses and biomass of benthic communities at the stations of the former Volga channel and the Priplotinnyi Reach floodplain. During the research period in 2005, 2020 there was a decrease in the biomass of benthos. The stage of destabilization of the Kuybyshev reservoir ecosystem, noted since the mid-1980s, against the background of anthropogenic eutrophication processes, is accompanied by a sharp decrease in the biomass of benthos and structural changes in benthic communities. In 2020, the benthos biomass, compared to 1985, decreased in deep-water areas and in the Priplotinnyi Reach coastal zone by about 8 times and amounted to 2.0 g / m2, which is due to a decrease in the proportion of pelophilic coenosis of oligochaetes Tubifex tubife and Limnodrilus hoffmeisteri. The biomass of forage benthos in the coastal zone decreased from 5.48 g / m2 to 2.94-1.75 g / m2 due to anthropogenic impact. The authors revealed similar processes of development of the chironomid coenosis on the former channel and the flooded floodplain. During the autumn survey, 9 species were recorded in shallow waters, the proportion of which is 19.5%. There was found a low biomass of Procladius ferrugineus larvae -0.05 -0.08 g / m2. The authors discuss the data of hydrobiological monitoring at the stations of the former channel and the flooded floodplain of the Priplotinnyi Reach, including the change in the coenosis of chironomids (Diptera, Chironomidae) as an object of indication of the ecological state of the reservoir.
Frugal discrete memristive device based on potassium permanganate solution
Authors: Revadekar Chetan C , Takaloo Ashkan Vakilipour , Shinde Sandeep P , Patil Swapnil R , Kundale Somnath S , Kim Deok-kee , Dongale Tukaram D 
Published: July 2021

Abstract
Many thin film-based devices with solid electrolytes have been studied for memristive applications. Herein, we report a simple and facile way to fabricate solution-based, low-cost, and discrete two-terminal memristive devices using the KMnO4 solution. The water and methanol were used as a solvent to prepare different concentrations of KMnO4 to carry out the optimization study. Furthermore, the effect of KMnO4 concentration with aqueous and methanol solvents was studied with the help of current-voltage, device charge, charge-flux, and cyclic endurance properties. Interestingly, all developed devices show the asymmetric time-domain charge and double valued charge-flux properties, suggesting that aqueous KMnO4 and methanol-KMnO4 based devices are non-ideal memristors or memristive devices. The statistical measures such as cumulative probability and coefficient of variation are reported for the memristive devices. The possible switching mechanism of the discrete memristive was tried to explain with the UV-visible spectrum and theoretical framework. The optimized device was further studied using the cyclic voltammogram, Bode plot, and Nyquist plot. An equivalent circuit was derived for the optimized discrete memristive device using electrochemical impendence spectroscopy results. The results of the present investigation are beneficial to develop programmable analog circuits, volatile memory, and synaptic devices using discrete memristive devices.
Depinning behavior of the vortex domain wall at the asymmetric triangular notch in permalloy wires
Authors: Shiu Deng-Shiang , Lai Kao-Fan , Liu Yi-Ying , Li Yuan-Ting , Gao Zhi-En , Kao Yee-Mou , Wu Jong-Ching , Horng Lance 
Published: July 2021

Abstract
The depinning field (H
D) of vortex domain walls in a permalloy wire with an asymmetric triangle notch was investigated through magneto-optic Kerr effect (MOKE) microscopy and micromagnetic simulations. Wires of various widths with notches fixed on the wall’s incoming side angle were studied for various outgoing side angles (ϕ). The curves of H
D of wall versus ϕ were measured by MOKE microscopy. Micromagnetic simulations were used to obtain curves of the H
D of the wall versus ϕ. The maximum of such a curve of tail-to-tail -clockwise wall is known as the transition angle (ϕ
T). The shape-anisotropic energy (E
A) of the notch outgoing side wire and the exchange energy (E
Ex) of the wall–notch interaction competed to influence the ϕ
T value. Pinning potential was increased by the E
Ex when ϕ was smaller than the ϕ
T. Pinning potential was considerably reduced by the small E
A when ϕ was larger than the ϕ
T. Furthermore, the ϕ
T value changed with the decrease in the depth of the notch because E
A was influenced by notch depth.
Change of Practice Patterns Following an Educational Comment on Reports of Benign-Appearing Endometrial Cells in Papanicolaou Tests
Authors: Jones Terri E , Onisko Agnieszka , Austin R Marshall , Yu Jing 
Published: July 2021

Abstract

Objectives
Since the publication of our study demonstrating high negative predictive values (&gt;99% for women in their 40s) of benign-appearing endometrial cells (nEMCs), we have begun to include an educational comment in Papanicolaou (Pap) test reports with nEMCs that recommends routine periodic screening for asymptomatic premenopausal women (APW). The current study evaluated how the inclusion of this comment has affected clinical practice patterns at our institution.

Methods
The 2017 to 2019 database identified 175 reports containing the educational comment in women aged 45 to 54 years with a follow-up time of 11 to 37 months. Data, including age, menopause status, symptoms, imaging, and outcome, were collected. The procedure rate and the impact of clinical modifiers were assessed.

Results
Thirty-seven (20.6%) patients had biopsies within 6 months, which decreased from 48.1% as we previously reported. All nine (5%) APW with biopsies triggered only by nEMCs had benign histopathology. The remaining 28 biopsied patients had abnormal bleeding or a thickened endometrium, or they were postmenopausal, including a 53-year-old patient with complex atypical hyperplasia. None of the 138 patients with conservative follow-up developed atypical/malignant lesions.

Conclusions
A qualifying educational note included in Pap reports significantly reduced follow-up biopsies in APW. Optimal follow-up of nEMCs should be based on relevant clinical modifiers.
Role of Age in the Spread of Influenza, 2011–2019: Data From the US Influenza Vaccine Effectiveness Network
Authors: Griggs Eric P , Flannery Brendan , Foppa Ivo M , Gaglani Manjusha , Murthy Kempapura , Jackson Michael L , Jackson Lisa A , Belongia Edward A , McLean Huong Q , Martin Emily T , Monto Arnold S , Zimmerman Richard K , Balasubramani Goundappa K , Chung Jessie R , Patel Manish ,   for the US Influenza Vaccine Effectiveness Study Investigators
Published: July 2021

Abstract
Intraseason timing of influenza infection among persons of different ages could reflect relative contributions to propagation of seasonal epidemics and has not been examined among ambulatory patients. Using data from the US Influenza Vaccine Effectiveness Network, we calculated risk ratios derived from comparing weekly numbers of influenza cases prepeak with those postpeak during the 2010–2011 through 2018–2019 influenza seasons. We sought to determine age-specific differences during the ascent versus descent of an influenza season by influenza virus type and subtype. We estimated 95% credible intervals around the risk ratios using Bayesian joint posterior sampling of weekly cases. Our population consisted of ambulatory patients with laboratory-confirmed influenza who enrolled in an influenza vaccine effectiveness study at 5 US sites during 9 influenza seasons after the 2009 influenza A virus subtype H1N1 (H1N1) pandemic. We observed that young children aged &lt;5 years tended to more often be infected with H1N1 during the prepeak period, while adults aged ≥65 years tended to more often be infected with H1N1 during the postpeak period. However, for influenza A virus subtype H3N2, children aged &lt;5 years were more often infected during the postpeak period. These results may reflect a contribution of different age groups to seasonal spread, which may differ by influenza virus type and subtype.
Lifestyle Behaviors Among Adults Recommended for Ambulatory Blood Pressure Monitoring According to the 2017 ACC/AHA Blood Pressure Guideline
Authors: Cohen Laura P , Hubbard Demetria , Colvin Calvin L , Jaeger Byron C , Poudel Bharat , Abdalla Marwah , Langford Aisha T , Hardy Shakia T , Sims Mario , Lewis Cora E , Muntner Paul , Shimbo Daichi 
Published: July 2021

Abstract

Background
The 2017 American College of Cardiology/American Heart Association blood pressure (BP) guideline recommends ambulatory BP monitoring to exclude white coat hypertension (WCH) among adults with office systolic BP (SBP)/diastolic BP (DBP) of 130–159/80–99 mm Hg, and masked hypertension (MHT) among adults with office SBP/DBP of 120–129/75–79 mm Hg after a 3-month trial of lifestyle modification. We estimated the proportion of individuals with ideal lifestyle factors among those who meet these office BP criteria.

Methods
We analyzed data from participants not taking antihypertensive medication in the Coronary Artery Risk Development in Young Adults (CARDIA) and Jackson Heart Study (JHS) who met the office BP criteria for screening for WCH (CARDIA n = 490, JHS n = 873) and MHT (CARDIA n = 486, JHS n = 614). We estimated the prevalence of lifestyle factors including ideal body mass index (BMI), physical activity, diet, and alcohol use among participants who met office BP criteria for WCH or MHT screening.

Results
Among participants who met office BP criteria for WCH screening, 15.5% in CARDIA and 3.6% in JHS had 3 or more ideal lifestyle factors. Among participants who met office BP criteria for MHT screening, 22.6% in CARDIA and 4.7% in JHS had 3 or more ideal lifestyle factors. Ideal BMI, diet, and physical activity were present in less than half of participants in each sample.

Conclusions
Few participants who met office BP criteria for the screening of WCH or MHT had ideal lifestyle factors.
Machine learning approaches for drug combination therapies
Authors: Güvenç Paltun Betül , Kaski Samuel , Mamitsuka Hiroshi 
Published: July 2021

AbstractDrug combination therapy is a promising strategy to treat complex diseases such as cancer and infectious diseases. However, current knowledge of drug combination therapies, especially in cancer patients, is limited because of adverse drug effects, toxicity and cell line heterogeneity. Screening new drug combinations requires substantial efforts since considering all possible combinations between drugs is infeasible and expensive. Therefore, building computational approaches, particularly machine learning methods, could provide an effective strategy to overcome drug resistance and improve therapeutic efficacy. In this review, we group the state-of-the-art machine learning approaches to analyze personalized drug combination therapies into three categories and discuss each method in each category. We also present a short description of relevant databases used as a benchmark in drug combination therapies and provide a list of well-known, publicly available interactive data analysis portals. We highlight the importance of data integration on the identification of drug combinations. Finally, we address the advantages of combining multiple data sources on drug combination analysis by showing an experimental comparison.
3Cnet: pathogenicity prediction of human variants using multitask learning with evolutionary constraints
Authors: Won Dhong-Gun , Kim Dong-Wook , Woo Junwoo , Lee Kyoungyeul 
Published: July 2021

Abstract

Motivation
Improvements in next-generation sequencing have enabled genome-based diagnosis for patients with genetic diseases. However, accurate interpretation of human variants requires knowledge from a number of clinical cases. In addition, manual analysis of each variant detected in a patient's genome requires enormous time and effort. To reduce the cost of diagnosis, various computational tools have been developed to predict the pathogenicity of human variants, but the shortage and bias of available clinical data can lead to overfitting of algorithms.

Results
We developed a pathogenicity predictor, 3Cnet, that uses recurrent neural networks to analyze the amino acid context of human variants. As 3Cnet is trained on simulated variants reflecting evolutionary conservation and clinical data, it can find disease-causing variants in patient genomes with 2.2 times greater sensitivity than currently available tools, more effectively discovering pathogenic variants and thereby improving diagnosis rates.

Availability and implementation
Codes (https://github.com/KyoungYeulLee/3Cnet/) and data (https://zenodo.org/record/4716879#.YIO-xqkzZH1) are freely available to non-commercial users.

Supplementary information
Supplementary data are available at Bioinformatics online.
HeterozygousHTRA1nonsense or frameshift mutations are pathogenic
Authors: Coste Thibault , Hervé Dominique , Neau Jean Philippe , Jouvent Eric , Ba Fatoumata , Bergametti Françoise , Lamy Matthias , Cogez Julien , Derache Nathalie , Schneckenburger Romain , Grelet Maude , Gollion Cédric , Lanotte Livia , Lauer Valérie , Layet Valérie , Urbanczyk Cédric , Didic Mira , Raynouard Igor , Delaval Laure , Dassa Jérémie , Florea Alexandru , Badiu Carmen , Nguyen Karine , Tournier-Lasserve Elisabeth 
Published: July 2021

AbstractHeterozygous missense HTRA1 mutations have been associated with an autosomal dominant cerebral small vessel disease (CSVD) whereas the pathogenicity of heterozygous HTRA1 stop codon variants is unclear. We performed a targeted high throughput sequencing of all known CSVD genes, including HTRA1, in 3853 unrelated consecutive CSVD patients referred for molecular diagnosis. The frequency of heterozygous HTRA1 mutations leading to a premature stop codon in this patient cohort was compared with their frequency in large control databases. An analysis of HTRA1 mRNA was performed in several stop codon carrier patients. Clinical and neuroimaging features were characterized in all probands. Twenty unrelated patients carrying a heterozygous HTRA1 variant leading to a premature stop codon were identified. A highly significant difference was observed when comparing our patient cohort with control databases: gnomAD v3.1.1 [P = 3.12 × 10−17, odds ratio (OR) = 21.9], TOPMed freeze 5 (P = 7.6 × 10−18, OR = 27.1) and 1000 Genomes (P = 1.5 × 10−5). Messenger RNA analysis performed in eight patients showed a degradation of the mutated allele strongly suggesting a haploinsufficiency. Clinical and neuroimaging features are similar to those previously reported in heterozygous missense mutation carriers, except for penetrance, which seems lower. Altogether, our findings strongly suggest that heterozygous HTRA1 stop codons are pathogenic through a haploinsufficiency mechanism. Future work will help to estimate their penetrance, an important information for genetic counselling.
Nicotine promotes vascular calcification via intracellular Ca2+-mediated, Nox5-induced oxidative stress, and extracellular vesicle release in vascular smooth muscle cells
Authors: Petsophonsakul Ploingarm , Burgmaier Mathias , Willems Brecht , Heeneman Sylvia , Stadler Nadina , Gremse Felix , Reith Sebastian , Burgmaier Kathrin , Kahles Florian , Marx Nikolaus , Natour Ehsan , Bidar Elham , Jacobs Michael , Mees Barend , Reutelingsperger Chris , Furmanik Malgorzata , Schurgers Leon 
Published: July 2021

Abstract

Aims
Smokers are at increased risk of cardiovascular events. However, the exact mechanisms through which smoking influences cardiovascular disease resulting in accelerated atherosclerosis and vascular calcification are unknown. The aim of this study was to investigate effects of nicotine on initiation of vascular smooth muscle cell (VSMC) calcification and to elucidate underlying mechanisms.

Methods and results
We assessed vascular calcification of 62 carotid lesions of both smoking and non-smoking patients using ex vivo micro-computed tomography (µCT) scanning. Calcification was present more often in carotid plaques of smokers (n = 22 of 30, 73.3%) compared to non-smokers (n = 11 of 32, 34.3%; P &lt; 0.001), confirming higher atherosclerotic burden. The difference was particularly profound for microcalcifications, which was 17-fold higher in smokers compared to non-smokers. In vitro, nicotine-induced human primary VSMC calcification, and increased osteogenic gene expression (Runx2, Osx, BSP, and OPN) and extracellular vesicle (EV) secretion. The pro-calcifying effects of nicotine were mediated by Ca2+-dependent Nox5. SiRNA knock-down of Nox5 inhibited nicotine-induced EV release and calcification. Moreover, pre-treatment of hVSMCs with vitamin K2 ameliorated nicotine-induced intracellular oxidative stress, EV secretion, and calcification. Using nicotinic acetylcholine receptor (nAChR) blockers α-bungarotoxin and hexamethonium bromide, we found that the effects of nicotine on intracellular Ca2+ and oxidative stress were mediated by α7 and α3 nAChR. Finally, we showed that Nox5 expression was higher in carotid arteries of smokers and correlated with calcification levels in these vessels.

Conclusion
In this study, we provide evidence that nicotine induces Nox5-mediated pro-calcific processes as novel mechanism of increased atherosclerotic calcification. We identified that activation of α7 and α3 nAChR by nicotine increases intracellular Ca2+ and initiates calcification of hVSMCs through increased Nox5 activity, leading to oxidative stress-mediated EV release. Identifying the role of Nox5-induced oxidative stress opens novel avenues for diagnosis and treatment of smoking-induced cardiovascular disease.
Evaluation of 13-Tetradecenyl Acetate Pheromone for Melanotus communis (Coleoptera: Elateridae) Detection in North Carolina Row Crop Agroecosystems
Authors: Pellegrino Alyssa M , Dorman Seth J , Williams Livy , Millar Jocelyn G , Huseth Anders S 
Published: July 2021

Abstract
Melanotus communis Gyllenhal (Coleoptera: Elateridae) larvae are a common soil-dwelling pest of many crops, including sweet potato, grains, and tobacco. Although many studies have focused on the larval stage of this pest, the seasonal activity and ecology of the adults (click beetles) are not well understood. The overarching goal of this study was to relate M. communis adult activity to host crops in the North Carolina row-crop agroecosystem. To do this, we conducted a two-year study documenting male M. communis activity, using a recently identified sex attractant pheromone, 13-tetradecenyl acetate. This project was divided into two parts: 1) a pheromone assessment study testing the efficacy and specificity of 13-tetradecenyl acetate, and two analogs, 13-tetradecenyl butyrate and 13-tetradecenyl hexanoate, and 2) a landscape survey using traps baited with 13-tetradecenyl acetate. Results of the efficacy study showed that 13-tetradecenyl acetate was the most effective M. communis lure when compared to non-baited control traps or traps baited with the two homologs. The landscape study documented a strong association between M. communis catch and the adjacent crop type. We found that adult M. communis abundance was greatest near corn, followed by sweet potato, and then cotton. Analysis of activity over time found that the peak activity occurred during July. Overall, this project demonstrates the usefulness of pheromone-baited traps in providing new information about M. communis activity.