bluuebunny/crossref_metadata_2025_split huggingface dataset:
Antagonizing circRNA_002581–miR-122–CPEB1 axis alleviates NASH through restoring PTEN–AMPK–mTOR pathway regulated autophagy
Authors: Jin Xi , Gao Jianguo , Zheng Ruoheng , Yu Mosang , Ren Yue , Yan Tianlian , Huang Yue , Li Youming 
Published: February 2020

AbstractCircular RNAs (circRNAs) have been shown to play critical roles in cancer biology, but their functions in nonalcoholic steatohepatitis (NASH) remain unexplored. Full length of circRNA_002581 was amplified and sequenced, followed by RNA immunoprecipitation, RNA-Fluorescence in Situ Hybridization and dual luciferase reporter gene analysis to confirm the existence of the circRNA_002581–miR-122–CPEB1 regulatory axis in vitro. CircRNA_002581 knockdown was used to study its roles in high concentration of free fatty acids-induced NASH-like cell model and a methionine and choline deficiency (MCD) diet-induced NASH mice model. Autophagy flux and related potential PTEN–AMPK–mTOR pathway were tested by western blot. CircRNA_002581 overexpression significantly relieved the inhibitory role of miR-122 on its target CPEB1 by sponging miR-122. CircRNA_002581 knockdown markedly attenuated lipid droplet accumulation, reduced the levels of alanine aminotransferase (ALT), aspartate aminotransferase (AST), pro-inflammatory cytokines, apoptosis, H2O2, and increased ATP level in both mice and cellular models of NASH. Mechanistically, circRNA_002581 interference significantly rescue the defective autophagy evidenced by increased autophagosome number, upregulated LC3-II/I level, and decreased p62 level. Further chloroquine-mediated total autophagy inhibition antagonizes the protective effect of circRNA_002581 knockdown. Finally, CPEB1–PTEN–AMPK–mTOR pathway is shown to link the autophagy and circRNA_002581 knockdown-mediated NASH alleviation. CircRNA_002581–miR-122–CPEB1 axis actively participates in the pathogenesis of NASH through PTEN–AMPK–mTOR pathway-related autophagy suppression. Targeting circRNA_002581 is a potential therapeutic strategy for NASH through partial autophagy restoration.
Enforced PGC-1α expression promotes CD8 T cell fitness, memory formation and antitumor immunity
Authors: Dumauthioz Nina , Tschumi Benjamin , Wenes Mathias , Marti Bastien , Wang Haiping , Franco Fabien , Li Wenhui , Lopez-Mejia Isabel C. , Fajas Lluis , Ho Ping-Chih , Donda Alena , Romero Pedro , Zhang Lianjun 
Published: February 2020

AbstractMemory CD8 T cells can provide long-term protection against tumors, which depends on their enhanced proliferative capacity, self-renewal and unique metabolic rewiring to sustain cellular fitness. Specifically, memory CD8 T cells engage oxidative phosphorylation and fatty acid oxidation to fulfill their metabolic demands. In contrast, tumor-infiltrating lymphocytes (TILs) display severe metabolic defects, which may underlie their functional decline. Here, we show that overexpression of proliferator-activated receptor gamma coactivator 1-alpha (PGC-1α), the master regulator of mitochondrial biogenesis (MB), favors CD8 T cell central memory formation rather than resident memory generation. PGC-1α-overexpressing CD8 T cells persist and mediate more robust recall responses to bacterial infection or peptide vaccination. Importantly, CD8 T cells with enhanced PGC-1α expression provide stronger antitumor immunity in a mouse melanoma model. Moreover, TILs overexpressing PGC-1α maintain higher mitochondrial activity and improved expansion when rechallenged in a tumor-free host. Altogether, our findings indicate that enforcing mitochondrial biogenesis promotes CD8 T cell memory formation, metabolic fitness, and antitumor immunity in vivo.
A dataset of radar-recorded heart sounds and vital signs including synchronised reference sensor signals
Authors: Shi Kilin , Schellenberger Sven , Will Christoph , Steigleder Tobias , Michler Fabian , Fuchs Jonas , Weigel Robert , Ostgathe Christoph , Koelpin Alexander 
Published: February 2020

AbstractRadar systems allow for contactless measurements of vital signs such as heart sounds, the pulse signal, and respiration. This approach is able to tackle crucial disadvantages of state-of-the-art monitoring devices such as the need for permanent wiring and skin contact. Potential applications include the employment in a hospital environment but also in home care or passenger vehicles. This dataset consists of synchronised data which are acquired using a Six-Port-based radar system operating at 24 GHz, a digital stethoscope, an ECG, and a respiration sensor. 11 test subjects were measured in different defined scenarios and at several measurement positions such as at the carotid, the back, and several frontal positions on the thorax. Overall, around 223 minutes of data were acquired at scenarios such as breath-holding, post-exercise measurements, and while speaking. The presented dataset contains reference-labeled ECG signals and can therefore easily be used to either test algorithms for monitoring the heart rate, but also to gain insights about characteristic effects of radar-based vital sign monitoring.
China CO2 emission accounts 2016–2017
Authors: Shan Yuli , Huang Qi , Guan Dabo , Hubacek Klaus 
Published: February 2020

AbstractDespite China’s emissions having plateaued in 2013, it is still the world’s leading energy consumer and CO2 emitter, accounting for approximately 30% of global emissions. Detailed CO2 emission inventories by energy and sector have great significance to China’s carbon policies as well as to achieving global climate change mitigation targets. This study constructs the most up-to-date CO2 emission inventories for China and its 30 provinces, as well as their energy inventories for the years 2016 and 2017. The newly compiled inventories provide key updates and supplements to our previous emission dataset for 1997–2015. Emissions are calculated based on IPCC (Intergovernmental Panel on Climate Change) administrative territorial scope that covers all anthropogenic emissions generated within an administrative boundary due to energy consumption (i.e. energy-related emissions from 17 fossil fuel types) and industrial production (i.e. process-related emissions from cement production). The inventories are constructed for 47 economic sectors consistent with the national economic accounting system. The data can be used as inputs to climate and integrated assessment models and for analysis of emission patterns of China and its regions.
Thirty complete Streptomyces genome sequences for mining novel secondary metabolite biosynthetic gene clusters
Authors: Lee Namil , Kim Woori , Hwang Soonkyu , Lee Yongjae , Cho Suhyung , Palsson Bernhard , Cho Byung-Kwan 
Published: February 2020

AbstractStreptomyces are Gram-positive bacteria of significant industrial importance due to their ability to produce a wide range of antibiotics and bioactive secondary metabolites. Recent advances in genome mining have revealed that Streptomyces genomes possess a large number of unexplored silent secondary metabolite biosynthetic gene clusters (smBGCs). This indicates that Streptomyces genomes continue to be an invaluable source for new drug discovery. Here, we present high-quality genome sequences of 22 Streptomyces species and eight different Streptomyces venezuelae strains assembled by a hybrid strategy exploiting both long-read and short-read genome sequencing methods. The assembled genomes have more than 97.4% gene space completeness and total lengths ranging from 6.7 to 10.1 Mbp. Their annotation identified 7,000 protein coding genes, 20 rRNAs, and 68 tRNAs on average. In silico prediction of smBGCs identified a total of 922 clusters, including many clusters whose products are unknown. We anticipate that the availability of these genomes will accelerate discovery of novel secondary metabolites from Streptomyces and elucidate complex smBGC regulation.
Benchmark classification dataset for laser-induced breakdown spectroscopy
Authors: Képeš Erik , Vrábel Jakub , Střítežská Sára , Pořízka Pavel , Kaiser Jozef 
Published: February 2020

AbstractIn this work, we present an extensive dataset of laser-induced breakdown spectroscopy (LIBS) spectra for the pre-training and evaluation of LIBS classification models. LIBS is a well-established spectroscopic method for in-situ and industrial applications, where LIBS is primarily applied for clustering and classification tasks. As such, our dataset is aimed at helping with the development and testing of classification and clustering methodologies. Moreover, the dataset could be used to pre-train classification models for applications where the amount of available data is limited. The dataset consists of LIBS spectra of 138 soil samples belonging to 12 distinct classes. The spectra were acquired with a state-of-the-art LIBS system. Lastly, the composition of each sample is also provided, including estimated uncertainties.
A New Intermittent Pumping Design for Fluid Shortage Wells
Authors: Liang Xingyuan , Zhou Fujian , Liang Tianbo 
Published: February 2020

AbstractLow oil price requires oil companies to reduce costs and increase benefits. The wells with deficient fluid supplies approximately account for 20–30% of all producing wells, and this situation is even worse in the old oilfields. Intermittent production is an effective way to reduce the cost and increase the system efficiency to overcome the shortage of oil supply from the reservoir. The key is to optimize the intermittent pumping scheme, i.e., to design reasonable shut-in and operating periods. In this study, this is achieved using the dynamic change of the fluid level in the wellbore. From the electrical power curve to the dynamometer card, the dynamic drop of the fluid level can be obtained, and thus the optimal operation time of the well; at last, from the inflow performance of the well, the optimal shut-in period can be obtained. This method shows a good application in the field through a case study.
Refined detection and phasing of structural aberrations in pediatric acute lymphoblastic leukemia by linked-read whole-genome sequencing
Authors: Nordlund Jessica , Marincevic-Zuniga Yanara , Cavelier Lucia , Raine Amanda , Martin Tom , Lundmark Anders , Abrahamsson Jonas , Norén-Nyström Ulrika , Lönnerholm Gudmar , Syvänen Ann-Christine 
Published: February 2020

AbstractStructural chromosomal rearrangements that can lead to in-frame gene-fusions are a leading source of information for diagnosis, risk stratification, and prognosis in pediatric acute lymphoblastic leukemia (ALL). Traditional methods such as karyotyping and FISH struggle to accurately identify and phase such large-scale chromosomal aberrations in ALL genomes. We therefore evaluated linked-read WGS for detecting chromosomal rearrangements in primary samples of from 12 patients diagnosed with ALL. We assessed the effect of input DNA quality on phased haplotype block size and the detectability of copy number aberrations and structural variants in the ALL genomes. We found that biobanked DNA isolated by standard column-based extraction methods was sufficient to detect chromosomal rearrangements even at low 10x sequencing coverage. Linked-read WGS enabled precise, allele-specific, digital karyotyping at a base-pair resolution for a wide range of structural variants including complex rearrangements and aneuploidy assessment. With use of haplotype information from the linked-reads, we also identified previously unknown structural variants, such as a compound heterozygous deletion of ERG in a patient with the DUX4-IGH fusion gene. We conclude that linked-read WGS allows detection of important pathogenic variants in ALL genomes at a resolution beyond that of traditional karyotyping and FISH.
Dynamical and thermodynamical approaches to open quantum systems
Authors: Semin Vitalii , Petruccione Francesco 
Published: February 2020

AbstractThe non-Markovian dynamics of open quantum systems is studied from two different points of view. The first one coincides with the traditional tracing out of the environmental degrees of freedom, presented in classical textbooks on open quantum systems. The second one is an approximation of the exact density operator with the knowledge of only several dynamical variables in the spirit of non-equilibrium thermodynamics. The approximation is based on the principle of maximal entropy. We discuss the information and the Renyi entropies, which lead to different approximations. The time-convolutionless master equation governs the dynamics of both traditional and approximated reduced density operator with a particular projection operator. Considering the example of two interacting qubits in a thermal environment, we compare the traditional and thermodynamical approaches.
TAK1 signaling regulates p53 through a mechanism involving ribosomal stress
Authors: Zonneville Justin , Wong Vincent , Limoge Michelle , Nikiforov Mikhail , Bakin Andrei V. 
Published: February 2020

AbstractTriple-negative breast cancer (TNBC) is among the most aggressive forms of breast cancer with limited therapeutic options. TAK1 is implicated in aggressive behavior of TNBC, while means are not fully understood. Here, we report that pharmacological blockade of TAK1 signaling hampered ribosome biogenesis (RBG) by reducing expression of RBG regulators such as RRS1, while not changing expression of ribosomal core proteins. Notably, TAK1 blockade upregulated expression of p53 target genes in cell lines carrying wild type (wt) TP53 but not in p53-mutant cells, suggesting involvement of ribosomal stress in the response. Accordingly, p53 activation by blockade of TAK1 was prevented by depletion of ribosomal protein RPL11. Further, siRNA-mediated depletion of TAK1 or RELA resulted in RPL11-dependent activation of p53 signaling. Knockdown of RRS1 was sufficient to disrupt nucleolar structures and resulted in activation of p53. TCGA data showed that TNBCs express high levels of RBG regulators, and elevated RRS1 levels correlate with unfavorable prognosis. Cytotoxicity data showed that TNBC cell lines are more sensitive to TAK1 inhibitor compared to luminal and HER2+ cell lines. These results show that TAK1 regulates p53 activation by controlling RBG factors, and the TAK1-ribosome axis is a potential therapeutic target in TNBC.
SP70-Targeted Imaging for the Early Detection of Lung Adenocarcinoma
Authors: Xu Jian , Zhang Shichang , Zhang Wei , Xie Erfu , Gu Min , Wang Yue , Yang Lu , Zhang Bingfeng , Zhang Jiexin , Gu Chunrong , Xu Ting , Li Daqian , Wang Fang , Huang Peijun , Pan Shiyang 
Published: February 2020

AbstractNJ001 is a monoclonal antibody that can specifically recognize the SP70 antigen on lung adenocarcinoma cells. The goal of this study was to explore its utility in targeted imaging. Subcutaneous xenograft and orthotopic lung tumor implantation BALB/c mouse models were established. Near-infrared fluorescent CF750-labeled NJ001 was injected into two tumor mouse models. Mice that received orthotopic lung tumor implantation were also injected with NJ001-conjugated nanomagnetic beads intravenously, and then underwent micro-CT scanning. Meanwhile, mice with lung tumor were intravenously injected with normal saline and bare nanomagnetic beads as a control. Fluorescence could be monitored in the mice detected by anti-SP70 fluorescence imaging, which was consistent with tumor burden. Signal intensities detected with SP70-targeted micro-CT scans were greater than those in control mice. More importantly, orthotopic tumor lesions could be found on the fourth week with SP70-targeted imaging, which was 2 weeks earlier than detection in the control. Our results suggest that SP70 is a promising target for molecular imaging, and molecularly targeted imaging with an NJ001-labeled probe could be applied for the early detection of lung adenocarcinoma.
Conformal smoothing of mid-spatial frequency surface error for nano-accuracy Continuous Phase Plates (CPP)
Authors: Song Ci , Zhang Wanli , Shi Feng , Lin Zhifan , Nie Xuqing 
Published: February 2020

AbstractThis paper presented a conformal smoothing theory, and smoothing capability evaluation was established on the proposed theory. According to pressure distribution model, processing parameters have been optimized and the CPP sample with a size of 340 × 340 mm was applied in conformal smoothing. The middle spatial frequency was effectively corrected with the total polishing time of 750 min, and energy was constringed 32.2 times (improved from 57.68 nm2·mm to 1.79 nm2·mm). Meanwhile, surface roughness RMS (root mean square) maintained at the same scale (changed from 265.4 nm to 265.2 nm). Parametric conformal smoothing was proven to be an effective method to control the middle spatial frequency error of CPPs.
Bergamot Polyphenols Improve Dyslipidemia and Pathophysiological Features in a Mouse Model of Non-Alcoholic Fatty Liver Disease
Authors: Musolino Vincenzo , Gliozzi Micaela , Scarano Federica , Bosco Francesca , Scicchitano Miriam , Nucera Saverio , Carresi Cristina , Ruga Stefano , Zito Maria Caterina , Maiuolo Jessica , Macrì Roberta , Amodio Nicola , Juli Giada , Tassone Pierfrancesco , Mollace Rocco , Caffrey Rebecca , Marioneaux Jonathon , Walker Ross , Ehrlich James , Palma Ernesto , Muscoli Carolina , Bedossa Pierre , Salvemini Daniela , Mollace Vincenzo , Sanyal Arun J. 
Published: February 2020

AbstractThere is a need for continued drug development for nonalcoholic steatohepatitis (NASH). Bergamot is a plant whose fruit juice is enriched with flavonoids and phenolic compounds which improves dyslipidemia and markers of systemic inflammation in patients with Metabolic Syndrome. The aim of this study was to perform a preclinical “proof of concept” study of Bergamot polyphenolic formulation (BPF99) for the treatment of NASH. A disease reversal study was performed in the diet-induced animal model of NAFLD (DIAMOND). Groups of 8 weeks old mice were randomly assigned to receive chow diet, high fat diet with sugar in drinking water (Western diet- WD). Mice on WD were further randomized to continue on WD gavaged with vehicle or continue on WD with additional gavage of BPF99 (50 mg/kg) after 16 weeks of diet. Mice were euthanized after 11 additional weeks. The primary endpoint was resolution of NASH. Secondary endpoints included changes in individual histological features, body weight, liver enzymes, dyslipidemia, markers of oxidative stress and molecular markers of disease activity and fibrosis. The results showed that BPF99 reduced ALT (mean 71.6 vs 44.6 IU/l, p < 0.01), triglycerides (38.8 vs 28.1 mg/dl, p < 0.05), LDL-C (39.2 vs 23.7 mg/dl, p < 0.001). It significantly improved NASH resolution (p < 0.001) and the SAF scores (p < 0.05) while the NAS improvement approached significance. BPF99 reduced markers of oxidative stress, along with reduced JNK and p38 MAP kinase activity. BPF99 did not reduce the number of mice with fibrosis but improved collagen proportional area (p < 0.04) and procollagen I and III expression. Collectively our results showed that BPF99 resolves NASH and ameliorates key histological and pathophysiological features of NASH along with improvement in ALT and dyslipidemia in the DIAMOND mice.
Effect of Hybrid mono/bimetallic Nanocomposites for an enhancement of Catalytic and Antimicrobial Activities
Authors: Sivaranjan Kuppan , Padmaraj Osaimany , Santhanalakshmi Jayadevan , Sathuvan Malairaj , Sathiyaseelan Anbazhagan , Sagadevan Suresh 
Published: February 2020

AbstractExploring the new catalytic systems for the reduction of organic and inorganic pollutants from an indispensable process in chemical, petrochemical, pharmaceutical and food industries, etc. Hence, in the present work, authors motivated to synthesize bare reduced graphene oxide (rGO), polyaniline (PANI), three different ratios of rGO-PANI(80:20,50:50, 10:90) composites and rGO-PANI(80:20,50:50, 10:90) supported mono (Pd) & bimetallic [Pd: Au(1:1,1:2, 2:1)] nanocomposite by a facile chemical reduction method. Also, it investigated their catalytic performances for the reduction of organic/inorganic pollutants and antimicrobial activities. All the freshly prepared bare rGO, PANI, three different ratios of rGO-PANI(80:20, 50:50,10:90) composites and rGO-PANI(80:20, 50:50,10:90)/Pd & Pd: Au(1:1, 1:2,2:1) nanocomposite hybrid catalysts were characterized using UV-Vis, FT-IR, SEM, FE-SEM, EDAX, HR-TEM, XRD, XPS and Raman spectroscopy analysis. Among them, an optimized best composition of rGO-PANI(80:20)/Pd: Au(1:1) bimetallic nanocomposite hybrid catalyst exhibits better catalytic reduction and antimicrobial activities than other composites, as a result of strong electrostatic interactions between rGO, PANI and bimetal (Pd: Au) NPs through a synergistic effect. Hence, an optimized rGO-PANI(80:20)/Pd:Au(1:1) bimetallic nanocomposite catalyst would be considered as a suitable catalyst for the reduction of different nitroarenes, organic dyes, heavy metal ions and also significantly inhibit the growth of S. aureus, S. Typhi as well as Candida albicans and Candida kruesi in wastewater.
Assessing the regional climate impact on terrestrial ecosystem over East Asia using coupled models with land use and land cover forcing during 1980–2010
Authors: Cao Fuqiang , Dan Li , Ma Zhuguo , Gao Tao 
Published: February 2020

AbstractThe coupled model AVIM-RIEMS2.0 is employed to examine the effects of climate change on the terrestrial ecosystem over East Asia during three decades since the 1980s. The vegetation parameters present significantly different responses to climate change in subregions, since the effects of climate change trigger seasonal signals on land surface processes at the regional scale. In the 1980s, the increasing temperature and rainfall lead to a decrease in biomass and leaf area index (LAI) in winter, but a slight increase in net primary productivity (NPP) over China. However, summertime precipitation shows interval changes of cyclic increase-decrease pattern over eastern China, and the similar pattern also occurs for the variations in biomass and LAI. In the 1990s, the temperature and precipitation over the most regions in East Asia demonstrate the opposite changes compared to the 1980s, which results in converse variations in LAI and vegetation carbon flux. In the 2000s, biomass and LAI in the mid-lower reaches of Yangtze River basin and southeast coastal regions exhibit the same changes as precipitation in winter, and NPP shows a similar response to temperature. The biomass and LAI show consistent responses to regional climate change in summer, while different responses are seen for NPP. In general, climate change had a great impact on the vegetation in the 1990s, which produced the remarkable influences on LAI and biomass in winter and the significant impacts on NPP in summer. Over the regions affected significantly by East Asian monsoon, e.g. South China, the terrestrial ecosystem displays a roughly consistent response to regional climate change.