bluuebunny/crossref_metadata_2025_split huggingface dataset:
Benchmark maps of 33 years of secondary forest age for Brazil
Authors: Silva Junior Celso H. L. , Heinrich Viola H. A. , Freire Ana T. G. , Broggio Igor S. , Rosan Thais M. , Doblas Juan , Anderson Liana O. , Rousseau Guillaume X. , Shimabukuro Yosio E. , Silva Carlos A. , House Joanna I. , Aragão Luiz E. O. C. 
Published: August 2020

AbstractThe restoration and reforestation of 12 million hectares of forests by 2030 are amongst the leading mitigation strategies for reducing carbon emissions within the Brazilian Nationally Determined Contribution targets assumed under the Paris Agreement. Understanding the dynamics of forest cover, which steeply decreased between 1985 and 2018 throughout Brazil, is essential for estimating the global carbon balance and quantifying the provision of ecosystem services. To know the long-term increment, extent, and age of secondary forests is crucial; however, these variables are yet poorly quantified. Here we developed a 30-m spatial resolution dataset of the annual increment, extent, and age of secondary forests for Brazil over the 1986–2018 period. Land-use and land-cover maps from MapBiomas Project (Collection 4.1) were used as input data for our algorithm, implemented in the Google Earth Engine platform. This dataset provides critical spatially explicit information for supporting carbon emissions reduction, biodiversity, and restoration policies, enabling environmental science applications, territorial planning, and subsidizing environmental law enforcement.
Kidney-based in vivo model for drug-induced nephrotoxicity testing
Authors: Chiou Yuan-Yow , Jiang Si-Tse , Ding Yu-Sian , Cheng Yu-Hsuan 
Published: August 2020

AbstractThe need is critical and urgent for a real-time, highly specific, and sensitive acute kidney injury biomarker. This study sought to establish a sensitive and specific Miox-NanoLuc transgenic mouse for early detection of drug-induced nephrotoxicity. We generated Miox-NanoLuc transgenic mice with kidney-specific NanoLuc overexpression. Our data showed that Miox-NanoLuc-produced luminescence was kidney-specific and had good stability at room temperature, 4 °C, − 20 °C, and repeated freeze–thaw cycles. Serum levels of BUN and creatinine were significantly increased at day 2 or 3 in cisplatin-treated mice and at day 5 in aristolochic acid (AAI)-treated mice. Particularly, the serum and urine Miox-NanoLuc luminescence levels were significantly increased at day 1 in cisplatin-treated mice and at day 3 in AAI-treated mice. Renal pathological analysis showed that the kidney sections of cisplatin-treated mice at day 5 and AAI-treated mice at day 13 showed cytolysis and marked vacuolization of tubular cells. In conclusion, we developed a new platform to early quantify drug-induced nephrotoxicity before serum BUN and creatinine levels increased and pathological tubular cell injury occurred. This model may serve as an early detection for drug- and food-induced nephrotoxicity and as an animal model to investigate tubular cell injury.
Bubbly flow prediction with randomized neural cells artificial learning and fuzzy systems based on k–ε turbulence and Eulerian model data set
Authors: Babanezhad Meisam , Pishnamazi Mahboubeh , Marjani Azam , Shirazian Saeed 
Published: August 2020

AbstractComputing gas and liquid interactions based on interfacial force models require a proper turbulence model that accurately resolve the turbulent scales such as turbulence kinetic energy and turbulence dissipation rate with cheap computational resources. The k − ε turbulence model can be a good turbulence predictive tool to simulate velocity components in different phases and approximately picture the turbulence eddy structure. However, even this average turbulence method can be expensive for very large domains of calculation, particularly when the number of phases and spices increases in the multi-size structure Eulerian approach. In this study, with the ability of artificial learning, we accelerate the simulation of gas and liquid interaction in the bubble column reactor. The artificial learning method is based on adaptive neuro-fuzzy inference system (ANFIS) method, which is a combination of neural cells and fuzzy structure for making decision or prediction. The learning method is specifically used in a cartesian coordinate such as Eulerian approach, while for the prediction process, the polar coordinate is applied on a fully meshless domain of calculations. During learning process all information at computing nodes is randomly chosen to remove natural pattern learning behavior of neural network cells. In addition, different $$r$$
r
and $$\theta$$
θ
are used to test the ability of the learning stage during prediction. The results indicate that there is great agreement between ANFIS and turbulence modeling of bubbly flow within the Eulerian framework. ANFIS method shows that neural cells can grow in the domain to provide high-resolution results and they are not limited to the movement or deformation of source points such as Eulerian method. In addition, this study shows that mapping between two different geometrical structures is possible with the ANFIS method due to the meshless behavior of this algorithm. The meshless behavior causes the stability of the machine learning method, which is independent of CFD boundary conditions.
Spatial patterns of microbial communities across surface waters of the Great Barrier Reef
Authors: Frade Pedro R. , Glasl Bettina , Matthews Samuel A. , Mellin Camille , Serrão Ester A. , Wolfe Kennedy , Mumby Peter J. , Webster Nicole S. , Bourne David G. 
Published: August 2020

AbstractMicroorganisms are fundamental drivers of biogeochemical cycling, though their contribution to coral reef ecosystem functioning is poorly understood. Here, we infer predictors of bacterioplankton community dynamics across surface-waters of the Great Barrier Reef (GBR) through a meta-analysis, combining microbial with environmental data from the eReefs platform. Nutrient dynamics and temperature explained 41.4% of inter-seasonal and cross-shelf variation in bacterial assemblages. Bacterial families OCS155, Cryomorphaceae, Flavobacteriaceae, Synechococcaceae and Rhodobacteraceae dominated inshore reefs and their relative abundances positively correlated with nutrient loads. In contrast, Prochlorococcaceae negatively correlated with nutrients and became increasingly dominant towards outershelf reefs. Cyanobacteria in Prochlorococcaceae and Synechococcaceae families occupy complementary cross-shelf biogeochemical niches; their abundance ratios representing a potential indicator of GBR nutrient levels. One Flavobacteriaceae-affiliated taxa was putatively identified as diagnostic for ecosystem degradation. Establishing microbial observatories along GBR environmental gradients will facilitate robust assessments of microbial contributions to reef health and inform tipping-points in reef condition.
Critical enzymes for biosynthesis of cucurbitacin derivatives in watermelon and their biological significance
Authors: Kim Young-Cheon , Choi Daeun , Cha Ahra , Lee Yeong-Geun , Baek Nam-In , Rimal Suman , Sang Jiun , Lee Youngseok , Lee Sanghyeob 
Published: August 2020

AbstractVarious cucurbitacins have been isolated, and their structures have been elucidated. Owing to their economic potential and importance as active pharmacological compounds, their cytotoxicity in various cancer cells has been assessed. Here, we mined several candidate genes with potential involvement in cucurbitacin biosynthesis in watermelon (Citrullus lanatus) and performed in vitro enzymatic assays and instrumental analyses using various substrates to identify cucurbitacin functions and products. Enzymatic activities of two acetyltransferases (ACTs) and one UDP-glucosyltransferase (UGT) against cucurbitacins were confirmed, resulting in the synthesis of novel cucurbitacins in vivo and/or in vitro to our knowledge. As ACTs and UGT are involved in the dynamic conversion of cucurbitacins by catalyzing acetylation and glucosylation at moieties in the cucurbitacins skeleton, these findings improve our knowledge on how these genes contribute to the diversity of cucurbitacins.
Chemically induced mutations in a MutaMouse reporter gene inform mechanisms underlying human cancer mutational signatures
Authors: Beal Marc A. , Meier Matthew J. , LeBlanc Danielle P. , Maurice Clotilde , O’Brien Jason M. , Yauk Carole L. , Marchetti Francesco 
Published: August 2020

AbstractTransgenic rodent (TGR) models use bacterial reporter genes to quantify in vivo mutagenesis. Pairing TGR assays with next-generation sequencing (NGS) enables comprehensive mutation pattern analysis to inform mutational mechanisms. We used this approach to identify 2751 independentlacZmutations in the bone marrow of MutaMouse animals exposed to four chemical mutagens: benzo[a]pyrene,N-ethyl-N-nitrosourea, procarbazine, and triethylenemelamine. We also collected published data for 706lacZmutations from eight additional environmental mutagens. We report thatlacZgene sequencing generates chemical-specific mutation signatures observed in human cancers with established environmental causes. For example, the mutation signature of benzo[a]pyrene, a carcinogen present in tobacco smoke, matched the signature associated with tobacco-induced lung cancers. Our results suggest that the analysis of chemically induced mutations in thelacZgene shortly after exposure provides an effective approach to characterize human-relevant mechanisms of carcinogenesis and propose novel environmental causes of mutation signatures observed in human cancers.
Quantum and nonlinear effects in light transmitted through planar atomic arrays
Authors: Bettles Robert J. , Lee Mark D. , Gardiner Simon A. , Ruostekoski Janne 
Published: August 2020

AbstractUnderstanding strong cooperative optical responses in dense and cold atomic ensembles is vital for fundamental science and emerging quantum technologies. Methodologies for characterizing light-induced quantum effects in such systems, however, are still lacking. Here we unambiguously identify significant quantum many-body effects, robust to position fluctuations and strong dipole–dipole interactions, in light scattered from planar atomic ensembles by comparing full quantum simulations with a semiclassical model neglecting quantum fluctuations. We find pronounced quantum effects at high atomic densities, light close to saturation intensity, and around subradiant resonances. Such conditions also maximize spin–spin correlations and entanglement between atoms, revealing the microscopic origin of light-induced quantum effects. In several regimes of interest, our approximate model reproduces light transmission remarkably well, permitting analysis of otherwise numerically inaccessible large ensembles, in which we observe many-body analogues of resonance power broadening, vacuum Rabi splitting, and significant suppression in cooperative reflection from atomic arrays.
Relaxation and transfer of photoexcited electrons at a coplanar few-layer 1 T′/2H-MoTe2 heterojunction
Authors: Hu Aiqin , Xu Xiaolong , Liu Wei , Xu Shengnan , Xue Zhaohang , Han Bo , Wang Shufeng , Gao Peng , Sun Quan , Gong Qihuang , Ye Yu , Lu Guowei 
Published: August 2020

AbstractFundamental dynamic processes at the electronic contact interface, such as carrier injection and transport, become pivotal and significantly affect device performance. Time-resolved photoemission electron microscopy (TR-PEEM) with high spatiotemporal resolution provides unprecedented abilities of imaging the electron dynamics at the interface. Here, we implement TR-PEEM to investigate the electron dynamics at a coplanar metallic 1 T′-MoTe2/semiconducting 2H-MoTe2 heterojunction. We find the non-equilibrium electrons in the 1 T′-MoTe2 possess higher energy than those in the 2H-MoTe2. The non-equilibrium photoelectrons collapse and relax to the lower energy levels in the order of picoseconds. The photoexcited electrons transfer from 1 T′-MoTe2 to 2H-MoTe2 with at a rate of ~0.8 × 1012 s−1 (as fast as 1.25 ps). These findings contribute to our understanding of the behavior of photoexcited electrons in heterojunctions and the design of in-plane optoelectronic devices.
In situ preparation of a nanocomposite comprising graphene and α-Fe2O3 nanospindles for the photo-degradation of antibiotics under visible light
Authors: Arora Komal , Karthikeyan Sekar , Shiekh Bilal Ahmad , Kaur Manvir , Singh Harjinder , Bhadu Gopala Ram , Kang Tejwant Singh 
Published: August 2020

Preparation of α-Fe2O3 nanospindle (NS) decorated graphene sheets for antibiotic degradation.
Identification of hepatocellular carcinoma prognostic markers based on 10-immune gene signature
Authors: Zhao Kaifei , Xu Lin , Li Feng , Ao Jin , Jiang Guojun , Shi Rongshu , Chen Fang , Luo Qing 
Published: August 2020

Abstract
Background: Due to the heterogeneity of hepatocellular carcinoma (HCC), hepatocelluarin-associated differentially expressed genes were analyzed by bioinformatics methods to screen the molecular markers for HCC prognosis and potential molecular targets for immunotherapy.
Methods: RNA-seq data and clinical follow-up data of HCC were downloaded from The Cancer Genome Atlas (TCGA) database. Multivariate Cox analysis and Lasso regression were used to identify robust immunity-related genes. Finally, a risk prognosis model of immune gene pairs was established and verified by clinical features, test set and Gene Expression Omnibus (GEO) external validation set.
Results: A total of 536 immune-related gene (IRGs) were significantly associated with the prognosis of patients with HCC. Ten robust IRGs were finally obtained and a prognostic risk prediction model was constructed by feature selection of Lasso. The risk score of each sample is calculated based on the risk model and is divided into high risk group (Risk-H) and low risk group (Risk-L). Risk models enable risk stratification of samples in training sets, test sets, external validation sets, staging and subtypes. The area under the curve (AUC) in the training set and the test set were all &gt;0.67, and there were significant overall suvival (OS) differences between the Risk-H and Risk-L samples. Compared with the published four models, the traditional clinical features of Grade, Stage and Gender, the model performed better on the risk prediction of HCC prognosis.
Conclusion: The present study constructed 10-gene signature as a novel prognostic marker for predicting survival in patients with HCC.
Predictive value of β-catenin in bladder cancer: a systematic review and meta-analysis
Authors: Ren Jin , Yang Yaodong , Peng Taifang , Xu Dong 
Published: August 2020

AbstractRecently, some studies have suggested that the abnormal expression of β-catenin in bladder cancer (BC) is associated with the progression and survival of BC, but there are still some controversies. Hence, we elaborated on the relationship between β-catenin expression and BC through a systematic literature review and meta-analysis. As of March 2020, Embase, PubMed, the Cochrane Library, Science Direct/Elsevier, Medline and CNKI were used for systematic literature retrieval to investigate the correlation between β-catenin expression and BC. Meta-analysis was performed using Review Manager and Stata software. Fourteen studies were included, including 865 BC tissues and 106 controls. Combined ORs were identified with 95% confidence intervals (95% CIs) in a random- or fixed-effects model. We illustrated that there was a significant correlation between β-catenin and BC, that there was abnormally high expression of β-catenin in BC tissues compared with normal bladder tissues (P&lt;0.05), and that the combined OR was 14.69 [5.73, 37.65]. Furthermore, the aberrant expression rates of β-catenin in high-grade and invasive bladder neoplasm tissues were greater than those in low-grade and non-muscle-invasive bladder tissues (P&lt;0.05), and the combined ORs were 0.31 [0.23, 0.43] and 0.21 [0.15, 0.29]. Finally, we found through meta-analysis that the higher the expression level of β-catenin, the shorter was the progression-free survival (PFS) of patients with BC (P&lt;0.05), and the combined OR was 2.74 [1.22, 6.14]. The present study suggests that the abnormal expression of β-catenin is associated with aggressive behavior and poor prognosis of BC, and β-catenin may be a molecular marker of the malignant degree and poor prognosis of BC.
Meiotic CENP-C is a shepherd: bridging the space between the centromere and the kinetochore in time and space
Authors: Fellmeth Jessica E. , McKim Kim S. 
Published: August 2020

Abstract
While many of the proteins involved in the mitotic centromere and kinetochore are conserved in meiosis, they often gain a novel function due to the unique needs of homolog segregation during meiosis I (MI). CENP-C is a critical component of the centromere for kinetochore assembly in mitosis. Recent work, however, has highlighted the unique features of meiotic CENP-C. Centromere establishment and stability require CENP-C loading at the centromere for CENP-A function. Pre-meiotic loading of proteins necessary for homolog recombination as well as cohesion also rely on CENP-C, as do the main scaffolding components of the kinetochore. Much of this work relies on new technologies that enable in vivo analysis of meiosis like never before. Here, we strive to highlight the unique role of this highly conserved centromere protein that loads on to centromeres prior to M-phase onset, but continues to perform critical functions through chromosome segregation. CENP-C is not merely a structural link between the centromere and the kinetochore, but also a functional one joining the processes of early prophase homolog synapsis to late metaphase kinetochore assembly and signaling.
Selected aspects of the analysis of molecular line observations of edge-on circumbinary disks
Authors: Avramenko R. , Wolf S. , Illenseer T. F. , Rehberg S. 
Published: August 2020

Context. Inner cavities, accretion arms, and density waves are characteristic structures in the density distribution of circumbinary disks. They are the result of the tidal interaction of the non-axisymmetric gravitational forces of the central binary with the surrounding disk and are most prominent in the inner region, where the asymmetry is most pronounced.
Aims. The goal of this study is to test the feasibility of reconstructing the gas density distribution and quantifying properties of structures in the inner regions of edge-on circumbinary disks using multiple molecular line observations.
Methods. The density distribution in circumbinary disks is calculated with 2D hydrodynamic simulations. Subsequently, molecular line emission maps are generated with 3D radiative transfer simulations. Based on these, we investigate the observability of characteristic circumbinary structures located in the innermost region for spatially resolved and unresolved disks.
Results. We find that it is possible to reconstruct the inner cavity, accretion arms, and density waves from spatially resolved multi-wavelength molecular line observations of circumbinary disks seen edge-on. For the spatially unresolved observations only, an estimate can be derived for the density gradient in the transition area between the cavity and the disk’s inner rim.
What flowers can bloom in a green open access landscape? Imagining a future with BitViews.
Authors: La Manna Manfredi 
Published: August 2020

BitViews is a blockchain application that collects, validates, and aggregates worldwide online usage data of author’s approved manuscripts (AAMs) deposited in Open Access Institutional Repositories. It creates a free public ledger of usage events that allows anyone to see which research outputs have been accessed, where, and when, thus providing the raw material to construct discipline- and region-specific non-citation based measures of research impact.BitViews’ short-term implications include:1.The re-alignment of journal impact measures (from citations to usage);2.Changed patterns in the production of research articles (towards high- usage topics);3.Creation of new networks of research collaboration;4.Enhanced opportunity for open data sharing.BitViews’ long-term effects are transformative. Because BitViews promotes the “unbundling” of AAMs from published articles, it endows AAMs with independent value. Two disruptive consequences follow: the very concept of APCs is undermined and the conditions are created for the academy to regain ownership of peer review. Relegating commercial publishers to the role of providers of post-AAM services, huge resources will be released. As soon as AAMs are de‐ coupled from articles, the same process and infrastructure can be applied to research monographs, thereby completing the cycle of Open Access to the whole production of knowledge.
Tacrolimus Improves the Implantation Rate in Patients with Elevated Th1/2 Helper Cell Ratio and Repeated Implantation Failure (RIF)
Authors: Bahrami-Asl Zahra , Farzadi Laya , Fattahi Amir , Yousefi Mehdi , Quinonero Alicia , Hakimi Parvin , Latifi Zeinab , Nejabati Hamid Reza , Ghasemnejad Tohid , Sadigh Aydin Raei , Heidari Mohammad Hassan , Nouri Mohammad , Novin Marefat Ghaffari , Dominguez Francisco 
Published: August 2020

Abstract
Introduction An abnormal endometrial immune response is involved in the pathogenesis of repeated implantation failure (RIF), so we investigated the effectiveness of tacrolimus treatment on the endometrium of RIF patients.
Materials and Methods Ten RIF patients with elevated T-helper 1/T-helper 2 (Th1/Th2) cell ratios were recruited into a clinical study. The expression of p53, leukemia inhibitory factor (LIF), interleukin (IL)-4, IL-10, IL-17, and interferon gamma (IFN-γ) in the endometrium of patients with and without tacrolimus treatment and the association of these factors with assisted reproductive technology (ART) outcomes were investigated.
Results Tacrolimus significantly increased the expression of LIF, IL-10, and IL-17 and decreased the expression of IL-4, IFN-γ, and the IFN-γ/IL-10 ratio in RIF patients. Tacrolimus treatment resulted in an implantation rate of 40%, a clinical pregnancy rate of 50%, and a live birth rate of 35% in RIF patients with elevated Th1/Th2 ratios who had previously failed to become pregnant despite at least three transfers of embryos. We also found a significant positive correlation between IL-10 levels and the implantation rate.
Conclusions Our findings suggest that RIF patients with a higher Th1/Th2 ratio could be candidates for tacrolimus therapy and that this immunosuppressive drug could be acting through upregulation of LIF, IL-10, and IL-17.
Familiäre Hypercholesterinämie in Deutschland
Authors: Schmidt Nina , Klose Gerald , Schatz Ulrike , Laufs Ulrich , März Winfried 
Published: August 2020

ZusammenfassungDie familiäre Hypercholesterinämie (FH) ist eine häufige, erbliche Störung im Cholesterinstoffwechsel. Sie kommt in ihrer heterozygoten Ausprägung mit einer Häufigkeit um 1 : 300 in der deutschen Bevölkerung vor, wird aber in der Regel zu selten und zu spät diagnostiziert. Das hohe kardiovaskuläre Risiko der Betroffenen kann durch eine frühzeitige medikamentöse Therapie reduziert werden. Die Verdachtsdiagnose wird anhand von klinischen Merkmalen wie erhöhte LDL-Cholesterinwerte und kutane Zeichen (Xanthome, Xanthelasmen) sowie einer auffälligen Eigen- und Familienanamnese gestellt und durch eine molekulargenetische Analyse gesichert. Innerhalb betroffener Familien ist ein Kaskadenscreening empfohlen. Die Therapie sollte entsprechend den bestehenden und aktualisierten Leitlinien erfolgen. In Deutschland wird die Versorgungssituation von FH-Patienten systematisch in einem Register (CaRe High-Register) erfasst. Erste Auswertungen zeigen, dass FH-Patienten in Deutschland
weiterhin unterbehandelt sind.