bluuebunny/crossref_metadata_2025_split huggingface dataset:
Quantifying the Effects of EMIC Wave Scattering and Magnetopause Shadowing in the Outer Electron Radiation Belt by Means of Data Assimilation
Authors: Cervantes S. , Shprits Y. Y. , Aseev N. A. , Allison H. J. 
Published: August 2020

AbstractIn this study we investigate two distinct loss mechanisms responsible for the rapid dropouts of radiation belt electrons by assimilating data from Van Allen Probes A and B and Geostationary Operational Environmental Satellites (GOES) 13 and 15 into a 3‐D diffusion model. In particular, we examine the respective contribution of electromagnetic ion cyclotron (EMIC) wave scattering and magnetopause shadowing for values of the first adiabatic invariant μ ranging from 300 to 3,000 MeV G−1. We inspect the innovation vector and perform a statistical analysis to quantitatively assess the effect of both processes as a function of various geomagnetic indices, solar wind parameters, and radial distance from the Earth. Our results are in agreement with previous studies that demonstrated the energy dependence of these two mechanisms. We show that EMIC wave scattering tends to dominate loss at lower L shells, and it may amount to between 10%/hr and 30%/hr of the maximum value of phase space density (PSD) over all L shells for fixed first and second adiabatic invariants. On the other hand, magnetopause shadowing is found to deplete electrons across all energies, mostly at higher L shells, resulting in loss from 50%/hr to 70%/hr of the maximum PSD. Nevertheless, during times of enhanced geomagnetic activity, both processes can operate beyond such location and encompass the entire outer radiation belt.
Preconditioned Crank‐Nicolson Markov Chain Monte Carlo Coupled With Parallel Tempering: An Efficient Method for Bayesian Inversion of Multi‐Gaussian Log‐Hydraulic Conductivity Fields
Authors: Xu Teng , Reuschen Sebastian , Nowak Wolfgang , Hendricks Franssen Harrie‐Jan 
Published: August 2020

AbstractGeostatistical inversion with quantified uncertainty for nonlinear problems requires techniques for providing conditional realizations of the random field of interest. Many first‐order second‐moment methods are being developed in this field, yet almost impossible to critically test them against high‐accuracy reference solutions in high‐dimensional and nonlinear problems. Our goal is to provide a high‐accuracy reference solution algorithm. Preconditioned Crank‐Nicolson Markov chain Monte Carlo (pCN‐MCMC) has been proven to be more efficient in the inversion of multi‐Gaussian random fields than traditional MCMC methods; however, it still has to take a long chain to converge to the stationary target distribution. Parallel tempering aims to sample by communicating between multiple parallel Markov chains at different temperatures. In this paper, we develop a new algorithm called pCN‐PT. It combines the parallel tempering technique with pCN‐MCMC to make the sampling more efficient, and hence converge to a stationary distribution faster. To demonstrate the high‐accuracy reference character, we test the accuracy and efficiency of pCN‐PT for estimating a multi‐Gaussian log‐hydraulic conductivity field with a relative high variance in three different problems: (1) in a high‐dimensional, linear problem; (2) in a high‐dimensional, nonlinear problem and with only few measurements; and (3) in a high‐dimensional, nonlinear problem with sufficient measurements. This allows testing against (1) analytical solutions (kriging), (2) rejection sampling, and (3) pCN‐MCMC in multiple, independent runs, respectively. The results demonstrate that pCN‐PT is an asymptotically exact conditional sampler and is more efficient than pCN‐MCMC in geostatistical inversion problems.
The role of histone methylation in the development of digestive cancers: a potential direction for cancer management
Authors: Chen Yuan , Ren Bo , Yang Jinshou , Wang Huanyu , Yang Gang , Xu Ruiyuan , You Lei , Zhao Yupei 
Published: August 2020

AbstractDigestive cancers are the leading cause of cancer-related death worldwide and have high risks of morbidity and mortality. Histone methylation, which is mediated mainly by lysine methyltransferases, lysine demethylases, and protein arginine methyltransferases, has emerged as an essential mechanism regulating pathological processes in digestive cancers. Under certain conditions, aberrant expression of these modifiers leads to abnormal histone methylation or demethylation in the corresponding cancer-related genes, which contributes to different processes and phenotypes, such as carcinogenesis, proliferation, metabolic reprogramming, epithelial–mesenchymal transition, invasion, and migration, during digestive cancer development. In this review, we focus on the association between histone methylation regulation and the development of digestive cancers, including gastric cancer, liver cancer, pancreatic cancer, and colorectal cancer, as well as on its clinical application prospects, aiming to provide a new perspective on the management of digestive cancers.
Application of exosomes as liquid biopsy in clinical diagnosis
Authors: Zhou Biting , Xu Kailun , Zheng Xi , Chen Ting , Wang Jian , Song Yongmao , Shao Yingkuan , Zheng Shu 
Published: August 2020

AbstractLiquid biopsy refers to the sampling and molecular analysis of the biofluids of circulating tumor cells, extracellular vesicles, nucleic acids, and so forth. Exosomes are small extracellular vesicles with sizes between 30–150 nm. They are secreted by multivesicular bodies through exocytosis in live cells and can participate in intercellular communication due to their contents, including nucleic acids, proteins, and lipids. Herein, we investigate publication frequencies on exosomes over the past 10 years, and review recent clinical studies on liquid biopsy of exosomes in the fields of oncology, pregnancy disorders, cardiovascular diseases, and organ transplantation. We also describe the advantages of exosomes as an effective liquid biopsy tool and the progression of exosome extraction methods. Finally, we depict the commercial development of exosome research and discuss the future role of exosomes in liquid biopsy.
A deep learning model to predict RNA-Seq expression of tumours from whole slide images
Authors: Schmauch Benoît , Romagnoni Alberto , Pronier Elodie , Saillard Charlie , Maillé Pascale , Calderaro Julien , Kamoun Aurélie , Sefta Meriem , Toldo Sylvain , Zaslavskiy Mikhail , Clozel Thomas , Moarii Matahi , Courtiol Pierre , Wainrib Gilles 
Published: August 2020

AbstractDeep learning methods for digital pathology analysis are an effective way to address multiple clinical questions, from diagnosis to prediction of treatment outcomes. These methods have also been used to predict gene mutations from pathology images, but no comprehensive evaluation of their potential for extracting molecular features from histology slides has yet been performed. We show that HE2RNA, a model based on the integration of multiple data modes, can be trained to systematically predict RNA-Seq profiles from whole-slide images alone, without expert annotation. Through its interpretable design, HE2RNA provides virtual spatialization of gene expression, as validated by CD3- and CD20-staining on an independent dataset. The transcriptomic representation learned by HE2RNA can also be transferred on other datasets, even of small size, to increase prediction performance for specific molecular phenotypes. We illustrate the use of this approach in clinical diagnosis purposes such as the identification of tumors with microsatellite instability.
Blind spots in global soil biodiversity and ecosystem function research
Authors: Guerra Carlos A. , Heintz-Buschart Anna , Sikorski Johannes , Chatzinotas Antonis , Guerrero-Ramírez Nathaly , Cesarz Simone , Beaumelle Léa , Rillig Matthias C. , Maestre Fernando T. , Delgado-Baquerizo Manuel , Buscot François , Overmann Jörg , Patoine Guillaume , Phillips Helen R. P. , Winter Marten , Wubet Tesfaye , Küsel Kirsten , Bardgett Richard D. , Cameron Erin K. , Cowan Don , Grebenc Tine , Marín César , Orgiazzi Alberto , Singh Brajesh K. , Wall Diana H. , Eisenhauer Nico 
Published: August 2020

AbstractSoils harbor a substantial fraction of the world’s biodiversity, contributing to many crucial ecosystem functions. It is thus essential to identify general macroecological patterns related to the distribution and functioning of soil organisms to support their conservation and consideration by governance. These macroecological analyses need to represent the diversity of environmental conditions that can be found worldwide. Here we identify and characterize existing environmental gaps in soil taxa and ecosystem functioning data across soil macroecological studies and 17,186 sampling sites across the globe. These data gaps include important spatial, environmental, taxonomic, and functional gaps, and an almost complete absence of temporally explicit data. We also identify the limitations of soil macroecological studies to explore general patterns in soil biodiversity-ecosystem functioning relationships, with only 0.3% of all sampling sites having both information about biodiversity and function, although with different taxonomic groups and functions at each site. Based on this information, we provide clear priorities to support and expand soil macroecological research.
Acoustic phonon recycling for photocarrier generation in graphene-WS2 heterostructures
Authors: Wei Ke , Sui Yizhen , Xu Zhongjie , Kang Yan , You Jie , Tang Yuxiang , Li Han , Ma Yating , Ouyang Hao , Zheng Xin , Cheng Xiangai , Jiang Tian 
Published: August 2020

AbstractElectron-phonon scattering is the key process limiting the efficiency of modern nanoelectronic and optoelectronic devices, in which most of the incident energy is converted to lattice heat and finally dissipates into the environment. Here, we report an acoustic phonon recycling process in graphene-WS2 heterostructures, which couples the heat generated in graphene back into the carrier distribution in WS2. This recycling process is experimentally recorded by spectrally resolved transient absorption microscopy under a wide range of pumping energies from 1.77 to 0.48 eV and is also theoretically described using an interfacial thermal transport model. The acoustic phonon recycling process has a relatively slow characteristic time (>100 ps), which is beneficial for carrier extraction and distinct from the commonly found ultrafast hot carrier transfer (~1 ps) in graphene-WS2 heterostructures. The combination of phonon recycling and carrier transfer makes graphene-based heterostructures highly attractive for broadband high-efficiency electronic and optoelectronic applications.
Emergence and clonal expansion of in vitro artemisinin-resistant Plasmodium falciparum kelch13 R561H mutant parasites in Rwanda
Authors: Uwimana Aline , Legrand Eric , Stokes Barbara H. , Ndikumana Jean-Louis Mangala , Warsame Marian , Umulisa Noella , Ngamije Daniel , Munyaneza Tharcisse , Mazarati Jean-Baptiste , Munguti Kaendi , Campagne Pascal , Criscuolo Alexis , Ariey Frédéric , Murindahabi Monique , Ringwald Pascal , Fidock David A. , Mbituyumuremyi Aimable , Menard Didier 
Published: August 2020

AbstractArtemisinin resistance (delayed P. falciparum clearance following artemisinin-based combination therapy), is widespread across Southeast Asia but to date has not been reported in Africa1–4. Here we genotyped the P. falciparum K13 (Pfkelch13) propeller domain, mutations in which can mediate artemisinin resistance5,6, in pretreatment samples collected from recent dihydroarteminisin-piperaquine and artemether-lumefantrine efficacy trials in Rwanda7. While cure rates were >95% in both treatment arms, the Pfkelch13 R561H mutation was identified in 19 of 257 (7.4%) patients at Masaka. Phylogenetic analysis revealed the expansion of an indigenous R561H lineage. Gene editing confirmed that this mutation can drive artemisinin resistance in vitro. This study provides evidence for the de novo emergence of Pfkelch13-mediated artemisinin resistance in Rwanda, potentially compromising the continued success of antimalarial chemotherapy in Africa.
Dorsal posterior cingulate cortex encodes the informational value of feedback in human–computer interaction
Authors: Wolff Susann , Kohrs Christin , Angenstein Nicole , Brechmann André 
Published: August 2020

AbstractIn communication between humans as well as in human–computer interaction, feedback is ubiquitous. It is essential for keeping up the dialogue between interaction partners, evaluating the adequacy of an action, or improving task performance. While the neuroscientific view on feedback has largely focused on its function as reward, more general definitions also emphasise its function as information about aspects of one’s task performance. Using fMRI in a computer-controlled auditory categorisation task, we studied the neural correlates of the informational value of computer-given feedback independent of reward. Feedback about the correctness of a decision, compared with feedback only indicating the registration of a decision, increases activation of the dorsal posterior cingulate cortex, supporting this region’s role in adapting to behaviourally relevant information. Both conditions elicit equally strong activation of the dorsal striatum which does not support an interpretation of feedback information as a type of reward. Instead, we suggest that it reflects a more fundamental aspect of human interaction behaviour, namely the establishment of a state that enables us to continue with the next step of the interaction.
Preoperative handgrip strength is not associated with complications and health-related quality of life after surgery for colorectal cancer
Authors: van Heinsbergen M. , Konsten J. L. , Bours M. J. L. , Bouvy N. D. , Weijenberg M. P. , Janssen-Heijnen M. L. 
Published: August 2020

AbstractColorectal cancer (CRC) treatment is associated with a high morbidity which may result in a reduced health-related quality of life (HRQoL). The pre-operative measurement of handgrip strength (HGS) might be a tool to predict the patient’s outcome after CRC surgery. The aim of this study was to evaluate the association of pre-operative HGS with the occurrence of postoperative complications and postoperative HRQoL. Stage I to III CRC patients ≥ 18 years were included at diagnosis. Demographic and clinical data as well as HGS were collected before start of treatment. HGS was classified as weak if it was below the gender-specific 25th percentile of our study population; otherwise HGS was classified as normal. The occurrence of postoperative complications within 30 days after surgery was collected from medical records. Cancer-specific HRQoL was measured 6 weeks after treatment using the EORTC QLQ-C30 and the EORTC QLQ-CR29 questionnaire. Of 295 patients who underwent surgical treatment for CRC, 67 (23%) patients had a weak HGS while 228 (77%) patients had normal HGS. 118 patients (40%) developed a postoperative complication. Complications occurred in 37% of patients with a weak HGS and in 41% of patients with a normal HGS (p = 0.47). After adjustment for age, sex, ASA, BMI and TNM, no significant associations between pre-operative HGS and the occurrence of postoperative complications and between HGS and HRQoL were found. We conclude that a single pre-operative HGS measurement was not associated with the occurrence of postoperative complications or post-treatment HRQoL in stage I–III CRC patients.
A framework based on deep neural networks to extract anatomy of mosquitoes from images
Authors: Minakshi Mona , Bharti Pratool , Bhuiyan Tanvir , Kariev Sherzod , Chellappan Sriram 
Published: August 2020

AbstractWe design a framework based on Mask Region-based Convolutional Neural Network to automatically detect and separately extract anatomical components of mosquitoes-thorax, wings, abdomen and legs from images. Our training dataset consisted of 1500 smartphone images of nine mosquito species trapped in Florida. In the proposed technique, the first step is to detect anatomical components within a mosquito image. Then, we localize and classify the extracted anatomical components, while simultaneously adding a branch in the neural network architecture to segment pixels containing only the anatomical components. Evaluation results are favorable. To evaluate generality, we test our architecture trained only with mosquito images on bumblebee images. We again reveal favorable results, particularly in extracting wings. Our techniques in this paper have practical applications in public health, taxonomy and citizen-science efforts.
Quantitative T2 MRI is predictive of neurodegeneration following organophosphate exposure in a rat model
Authors: Lee Kevin , Bohnert Sara , Bouchard Matthew , Vair Cory , Farrell Jordan S. , Teskey G. Campbell , Mikler John , Dunn Jeff F. 
Published: August 2020

AbstractOrganophosphorus compounds, such as chemical warfare nerve agents and pesticides, are known to cause neurological damage. This study measured nerve agent-related neuropathology and determined whether quantitative T2 MRI could be used as a biomarker of neurodegeneration. Quantitative T2 MRI was performed using a 9.4 T MRI on rats prior to and following soman exposure. T2 images were taken at least 24 h prior, 1 h and 18–24 h after soman exposure. Rats were pre- and post-treated with HI-6 dimethanesulfonate and atropine methyl nitrate. A multicomponent T2 acquisition and analysis was performed. Brains were stained with Fluoro-Jade C to assess neurodegeneration. Rats exposed to soman developed behavioral expression of electrographic seizures. At 18–24 h after soman exposure, significant increases in T2, a possible marker of edema, were found in multiple regions. The largest changes were in the piriform cortex (before: 47.7 ± 1.4 ms; 18–24 h: 82.3 ± 13.4 ms). Fluoro-Jade C staining showed significant neurodegeneration 18–24 h post exposure. The piriform cortex had the strongest correlation between the change in relaxation rate and percent neurodegeneration (r = 0.96, p < 0.001). These findings indicate there is regionally specific neurodegeneration 24 h after exposure to soman. The high correlation between T2 relaxivity and histopathology supports the use of T2 as a marker of injury.
Influence of kiwifruit on gastric and duodenal inflammation-related gene expression in aspirin-induced gastric mucosal damage in rats
Authors: Bentley-Hewitt Kerry L. , Perrott Matthew , Butts Christine A. , Hedderley Duncan I. , Stoklosinski Halina M. , Parkar Shanthi G. 
Published: August 2020

AbstractKiwifruit (KF) contains bioactive compounds with potential anti-inflammatory properties. In this study, we investigated the protective effects of KF on gastric and duodenal damage induced by soluble aspirin in healthy rats. Sixty-four male Sprague Dawley rats were allocated to eight experimental treatments (n = 8) and the experimental diets were fed for 14 days ad libitum. The experimental diets were 20% fresh pureed KF (green-fleshed and gold-fleshed) or 10% glucose solution (control diet). A positive anti-inflammatory control treatment (ranitidine) was included. At the end of the 14-day feeding period, the rats were fasted overnight, and the following morning soluble aspirin (400 mg/kg aspirin) or water (control) was administered by oral gavage. Four hours after aspirin administration, the rats were euthanized and samples taken for analysis. We observed no significant ulcer formation or increase in infiltration of the gastric mucosal inflammatory cells in the rats with the aspirin treatment. Despite this, there were significant changes in gene expression, such as in the duodenum of aspirin-treated rats fed green KF where there was increased expression of inflammation-related genes NOS2 and TNF-alpha. We also observed that gold and green KF diets had a number of contrasting effects on genes related to inflammation and gastro-protective effects.
Fabrication of flexible self-powered humidity sensor based on super-hydrophilic titanium oxide nanotube arrays
Authors: Farahani Elham , Mohammadpour Raheleh 
Published: August 2020

AbstractStable and flexible super-hydrophilic nanotubular-based titanium oxide electrode has been utilized as the active electrode of self-powered humidity sensor. TiO2 nanotubular electrodes fabricated through anodization method and utilized in combination with Kapton electrode as the triboelectric nanogenerator (TENG). Vertical contact-separation mode TENG performance has been examined in various range of frequencies and the maximum output voltage and current more than 300 V and 40 μA respectively with maximum power of 1.25 ± 0.67 mW has been achieved at 4 Hz. The fabricated TENG has been employed as the active self-powered humidity sensor. Super-hydrophilic feature of TiO2 nanotubes resulted in full absorption of water molecules, and noticeable decrease in charge transfer across two triboelectric materials upon increasing humidity. The TiO2-based TENG sensor was exposed to various relative humidity (RH) and the results showed that by increasing the humidity the output voltage and output current decreased from 162.24 ± 35.99 V and 20.4 ± 4.93 μA at RH = 20% to 37.92 ± 1.54 V at RH = 79% and 40.87 88 6.88 ± 1.7 μA at RH = 84%, respectively, Which shows the responsivity more than 300%. This method of measuring humidity has a simple and cost-effective fabrication that has various applications in many fields such as industry and medicine.
Normalized power variance of eLORETA at high-convexity area predicts shunt response in idiopathic normal pressure hydrocephalus
Authors: Aoki Yasunori , Kazui Hiroaki , Bruña Ricardo , Pascual-Marqui Roberto D. , Yoshiyama Kenji , Wada Tamiki , Kanemoto Hideki , Suzuki Yukiko , Suehiro Takashi , Matsumoto Takuya , Kakeda Kyosuke , Hata Masahiro , Canuet Leonides , Ishii Ryouhei , Iwase Masao , Ikeda Manabu 
Published: August 2020

AbstractIdiopathic normal pressure hydrocephalus (iNPH) is a neuropsychiatric disease characterized by gait disturbance, cognitive deterioration and urinary incontinence associated with excessive accumulation of cerebrospinal fluid (CSF) in the brain ventricles. These symptoms, in particular gait disturbance, can be potentially improved by shunt operation in the early stage of the disease, and the intervention associates with a worse outcome when performed late during the course of the disease. Despite the variable outcome of shunt operation, noninvasive presurgical prediction methods of shunt response have not been established yet. In the present study, we used normalized power variance (NPV), a sensitive measure of the instability of cortical electrical activity, to analyze cortical electrical activity derived from EEG data using exact-low-resolution-electromagnetic-tomography (eLORETA) in 15 shunt responders and 19 non-responders. We found that shunt responders showed significantly higher NPV values at high-convexity areas in beta frequency band than non-responders. In addition, using this difference, we could discriminate shunt responders from non-responders with leave-one-subject-out cross-validation accuracy of 67.6% (23/34) [positive predictive value of 61.1% (11/18) and negative predictive value of 75.0% (12/16)]. Our findings indicate that eLORETA-NPV can be a useful tool for noninvasive prediction of clinical response to shunt operation in patients with iNPH.