bluuebunny/crossref_metadata_2025_split huggingface dataset:
Emerging roles for UDP-glucuronosyltransferases in drug resistance and cancer progression
Authors: Allain Eric P. , Rouleau Michèle , Lévesque Eric , Guillemette Chantal 
Published: February 2020

AbstractThe best-known role of UDP-glucuronosyltransferase enzymes (UGTs) in cancer is the metabolic inactivation of drug therapies. By conjugating glucuronic acid to lipophilic drugs, UGTs impair the biological activity and enhance the water solubility of these agents, driving their elimination. Multiple clinical observations support an expanding role for UGTs as modulators of the drug response and in mediating drug resistance in numerous cancer types. However, accumulating evidence also suggests an influence of the UGT pathway on cancer progression. Dysregulation of the expression and activity of UGTs has been associated with the progression of several cancers, arguing for UGTs as possible mediators of oncogenic pathways and/or disease accelerators in a drug-naive context. The consequences of altered UGT activity on tumour biology are incompletely understood. They might be associated with perturbed levels of bioactive endogenous metabolites such as steroids and bioactive lipids that are inactivated by UGTs or through non-enzymatic mechanisms, thereby eliciting oncogenic signalling cascades. This review highlights the evidence supporting dual roles for the UGT pathway, affecting cancer progression and drug resistance. Pharmacogenomic testing of UGT profiles in patients and the development of therapeutic options that impair UGT actions could provide useful prognostic and predictive biomarkers and enhance the efficacy of anti-cancer drugs.
High-resolution tomographic volumetric additive manufacturing
Authors: Loterie Damien , Delrot Paul , Moser Christophe 
Published: February 2020

AbstractIn tomographic volumetric additive manufacturing, an entire three-dimensional object is simultaneously solidified by irradiating a liquid photopolymer volume from multiple angles with dynamic light patterns. Though tomographic additive manufacturing has the potential to produce complex parts with a higher throughput and a wider range of printable materials than layer-by-layer additive manufacturing, its resolution currently remains limited to 300 µm. Here, we show that a low-étendue illumination system enables the production of high-resolution features. We further demonstrate an integrated feedback system to accurately control the photopolymerization kinetics over the entire build volume and improve the geometric fidelity of the object solidification. Hard and soft centimeter-scale parts are produced in less than 30 seconds with 80 µm positive and 500 µm negative features, thus demonstrating that tomographic additive manufacturing is potentially suitable for the ultrafast fabrication of advanced and functional constructs.
Deriving disease modules from the compressed transcriptional space embedded in a deep autoencoder
Authors: Dwivedi Sanjiv K. , Tjärnberg Andreas , Tegnér Jesper , Gustafsson Mika 
Published: February 2020

AbstractDisease modules in molecular interaction maps have been useful for characterizing diseases. Yet biological networks, that commonly define such modules are incomplete and biased toward some well-studied disease genes. Here we ask whether disease-relevant modules of genes can be discovered without prior knowledge of a biological network, instead training a deep autoencoder from large transcriptional data. We hypothesize that modules could be discovered within the autoencoder representations. We find a statistically significant enrichment of genome-wide association studies (GWAS) relevant genes in the last layer, and to a successively lesser degree in the middle and first layers respectively. In contrast, we find an opposite gradient where a modular protein–protein interaction signal is strongest in the first layer, but then vanishing smoothly deeper in the network. We conclude that a data-driven discovery approach is sufficient to discover groups of disease-related genes.
Thermally activated triplet exciton release for highly efficient tri-mode organic afterglow
Authors: Jin Jibiao , Jiang He , Yang Qingqing , Tang Lele , Tao Ye , Li Yuanyuan , Chen Runfeng , Zheng Chao , Fan Quli , Zhang Kenneth Yin , Zhao Qiang , Huang Wei 
Published: February 2020

AbstractDeveloping high-efficient afterglow from metal-free organic molecules remains a formidable challenge due to the intrinsically spin-forbidden phosphorescence emission nature of organic afterglow, and only a few examples exhibit afterglow efficiency over 10%. Here, we demonstrate that the organic afterglow can be enhanced dramatically by thermally activated processes to release the excitons on the stabilized triplet state (T1*) to the lowest triplet state (T1) and to the singlet excited state (S1) for spin-allowed emission. Designed in a twisted donor–acceptor architecture with small singlet-triplet splitting energy and shallow exciton trapping depth, the thermally activated organic afterglow shows an efficiency up to 45%. This afterglow is an extraordinary tri-mode emission at room temperature from the radiative decays of S1, T1, and T1*. With the highest afterglow efficiency reported so far, the tri-mode afterglow represents an important concept advance in designing high-efficient organic afterglow materials through facilitating thermally activated release of stabilized triplet excitons.
Mahan excitons in room-temperature methylammonium lead bromide perovskites
Authors: Palmieri Tania , Baldini Edoardo , Steinhoff Alexander , Akrap Ana , Kollár Márton , Horváth Endre , Forró László , Jahnke Frank , Chergui Majed 
Published: February 2020

AbstractIn a seminal paper, Mahan predicted that excitonic bound states can still exist in a semiconductor at electron-hole densities above the insulator-to-metal Mott transition. However, no clear evidence for this exotic quasiparticle, dubbed Mahan exciton, exists to date at room temperature. In this work, we combine ultrafast broadband optical spectroscopy and advanced many-body calculations to reveal that organic-inorganic lead-bromide perovskites host Mahan excitons at room temperature. Persistence of the Wannier exciton peak and the enhancement of the above-bandgap absorption are observed at all achievable photoexcitation densities, well above the Mott density. This is supported by the solution of the semiconductor Bloch equations, which confirms that no sharp transition between the insulating and conductive phase occurs. Our results demonstrate the robustness of the bound states in a regime where exciton dissociation is otherwise expected, and offer promising perspectives in fundamental physics and in room-temperature applications involving high densities of charge carriers.
Switchable encapsulation of polysulfides in the transition between sulfur and lithium sulfide
Authors: Fu Yongsheng , Wu Zhen , Yuan Yifei , Chen Peng , Yu Lei , Yuan Lei , Han Qiurui , Lan Yingjie , Bai Wuxin , Kan Erjun , Huang Chengxi , Ouyang Xiaoping , Wang Xin , Zhu Junwu , Lu Jun 
Published: February 2020

AbstractEncapsulation strategies are widely used for alleviating dissolution and diffusion of polysulfides, but they experience nonrecoverable structural failure arising from the repetitive severe volume change during lithium−sulfur battery cycling. Here we report a methodology to construct an electrochemically recoverable protective layer of polysulfides using an electrolyte additive. The additive nitrogen-doped carbon dots maintain their “dissolved” status in the electrolyte at the full charge state, and some of them function as active sites for lithium sulfide growth at the full discharge state. When polysulfides are present amid the transition between sulfur and lithium sulfide, nitrogen-doped carbon dots become highly reactive with polysulfides to form a solid and recoverable polysulfide-encapsulating layer. This design skilfully avoids structural failure and efficiently suppresses polysulfide shuttling. The sulfur cathode delivers a high reversible capacity of 891 mAh g−1 at 0.5 C with 99.5% coulombic efficiency and cycling stability up to 1000 cycles at 2 C.
Crystal structure of Drosophila Piwi
Authors: Yamaguchi Sonomi , Oe Akira , Nishida Kazumichi M. , Yamashita Keitaro , Kajiya Asako , Hirano Seiichi , Matsumoto Naoki , Dohmae Naoshi , Ishitani Ryuichiro , Saito Kuniaki , Siomi Haruhiko , Nishimasu Hiroshi , Siomi Mikiko C. , Nureki Osamu 
Published: February 2020

AbstractPIWI-clade Argonaute proteins associate with PIWI-interacting RNAs (piRNAs), and silence transposons in animal gonads. Here, we report the crystal structure of the Drosophila PIWI-clade Argonaute Piwi in complex with endogenous piRNAs, at 2.9 Å resolution. A structural comparison of Piwi with other Argonautes highlights the PIWI-specific structural features, such as the overall domain arrangement and metal-dependent piRNA recognition. Our structural and biochemical data reveal that, unlike other Argonautes including silkworm Siwi, Piwi has a non-canonical DVDK tetrad and lacks the RNA-guided RNA cleaving slicer activity. Furthermore, we find that the Piwi mutant with the canonical DEDH catalytic tetrad exhibits the slicer activity and readily dissociates from less complementary RNA targets after the slicer-mediated cleavage, suggesting that the slicer activity could compromise the Piwi-mediated co-transcriptional silencing. We thus propose that Piwi lost the slicer activity during evolution to serve as an RNA-guided RNA-binding platform, thereby ensuring faithful co-transcriptional silencing of transposons.
Maturation of the human striatal dopamine system revealed by PET and quantitative MRI
Authors: Larsen Bart , Olafsson Valur , Calabro Finnegan , Laymon Charles , Tervo-Clemmens Brenden , Campbell Elizabeth , Minhas Davneet , Montez David , Price Julie , Luna Beatriz 
Published: February 2020

AbstractThe development of the striatum dopamine (DA) system through human adolescence, a time of increased sensation seeking and vulnerability to the emergence of psychopathology, has been difficult to study due to pediatric restrictions on direct in vivo assessments of DA. Here, we applied neuroimaging in a longitudinal sample of n = 146 participants aged 12–30. R2′, an MR measure of tissue iron which co-localizes with DA vesicles and is necessary for DA synthesis, was assessed across the sample. In the 18–30 year-olds (n = 79) we also performed PET using [11C]dihydrotetrabenazine (DTBZ), a measure of presynaptic vesicular DA storage, and [11C]raclopride (RAC), an indicator of D2/D3 receptor availability. We observed decreases in D2/D3 receptor availability with age, while presynaptic vesicular DA storage (as measured by DTBZ), which was significantly associated with R2′ (standardized coefficient = 0.29, 95% CI = [0.11, 0.48]), was developmentally stable by age 18. Our results provide new evidence for maturational specialization of the striatal DA system through adolescence.
Clades of huge phages from across Earth’s ecosystems
Authors: Al-Shayeb Basem , Sachdeva Rohan , Chen Lin-Xing , Ward Fred , Munk Patrick , Devoto Audra , Castelle Cindy J. , Olm Matthew R. , Bouma-Gregson Keith , Amano Yuki , He Christine , Méheust Raphaël , Brooks Brandon , Thomas Alex , Lavy Adi , Matheus-Carnevali Paula , Sun Christine , Goltsman Daniela S. A. , Borton Mikayla A. , Sharrar Allison , Jaffe Alexander L. , Nelson Tara C. , Kantor Rose , Keren Ray , Lane Katherine R. , Farag Ibrahim F. , Lei Shufei , Finstad Kari , Amundson Ronald , Anantharaman Karthik , Zhou Jinglie , Probst Alexander J. , Power Mary E. , Tringe Susannah G. , Li Wen-Jun , Wrighton Kelly , Harrison Sue , Morowitz Michael , Relman David A. , Doudna Jennifer A. , Lehours Anne-Catherine , Warren Lesley , Cate Jamie H. D. , Santini Joanne M. , Banfield Jillian F. 
Published: February 2020

AbstractBacteriophages typically have small genomes1 and depend on their bacterial hosts for replication2. Here we sequenced DNA from diverse ecosystems and found hundreds of phage genomes with lengths of more than 200 kilobases (kb), including a genome of 735 kb, which is—to our knowledge—the largest phage genome to be described to date. Thirty-five genomes were manually curated to completion (circular and no gaps). Expanded genetic repertoires include diverse and previously undescribed CRISPR–Cas systems, transfer RNAs (tRNAs), tRNA synthetases, tRNA-modification enzymes, translation-initiation and elongation factors, and ribosomal proteins. The CRISPR–Cas systems of phages have the capacity to silence host transcription factors and translational genes, potentially as part of a larger interaction network that intercepts translation to redirect biosynthesis to phage-encoded functions. In addition, some phages may repurpose bacterial CRISPR–Cas systems to eliminate competing phages. We phylogenetically define the major clades of huge phages from human and other animal microbiomes, as well as from oceans, lakes, sediments, soils and the built environment. We conclude that the large gene inventories of huge phages reflect a conserved biological strategy, and that the phages are distributed across a broad bacterial host range and across Earth’s ecosystems.
A voltage and current measurement dataset for plug load appliance identification in households
Authors: Medico Roberto , De Baets Leen , Gao Jingkun , Giri Suman , Kara Emre , Dhaene Tom , Develder Chris , Bergés Mario , Deschrijver Dirk 
Published: February 2020

AbstractThis paper presents the Plug-Load Appliance Identification Dataset (PLAID), a labelled dataset containing records of the electrical voltage and current of domestic electrical appliances obtained at a high sampling frequency (30 kHz). The dataset contains 1876 records of individually-metered appliances from 17 different appliance types (e.g., refrigerators, microwave ovens, etc.) comprising 330 different makes and models, and collected at 65 different locations in Pittsburgh, Pennsylvania (USA). Additionally, PLAID contains 1314 records of the combined operation of 13 of these appliance types (i.e., measurements obtained when multiple appliances were active simultaneously). Identifying electrical appliances based on electrical measurements is of importance in demand-side management applications for the electrical power grid including automated load control, load scheduling and non-intrusive load monitoring. This paper provides a systematic description of the measurement setup and dataset so that it can be used to develop and benchmark new methods in these and other applications, and so that extensions to it can be developed and incorporated in a consistent manner.
Application of single-level and multi-level modeling approach to examine geographic and socioeconomic variation in underweight, overweight and obesity in Nepal: findings from NDHS 2016
Authors: Shrestha Nipun , Mishra Shiva Raj , Ghimire Saruna , Gyawali Bishal , Pradhan Pranil Man Singh , Schwarz Dan 
Published: February 2020

AbstractNepal’s dual burden of undernutrition and over nutrition warrants further exploration of the population level differences in nutritional status. The study aimed to explore, for the first time in Nepal, potential geographic and socioeconomic variation in underweight and overweight and/or obesity prevalence in the country, adjusted for cluster and sample weight. Data came from 14,937 participants, including 6,172 men and 8,765 women, 15 years or older who participated in the 2016 Nepal Demography and Health Survey (NDHS). Single-level and multilevel multi-nominal logistic regression models and Lorenz curves were used to explore the inequalities in weight status. Urban residents had higher odds of being overweight and/or obese (OR: 1.89, 95% CI: 1.62–2.20) and lower odds of being underweight (OR: 0.81, 95% CI: 0.70–0.93) than rural residents. Participants from Provinces 2, and 7 were less likely to be overweight/obese and more likely to be underweight (referent: province-1). Participants from higher wealth quintile households were associated with higher odds of being overweight and/or obese (P-trend < 0.001) and lower odds of being underweight (P-trend < 0.001). Urban females at the highest wealth quintile were more vulnerable to overweight and/or obesity as 49% of them were overweight and/or obese and nearly 39% at the lowest wealth quintile were underweight.
Large-scale Quality Control of Cardiac Imaging in Population Studies: Application to UK Biobank
Authors: Tarroni Giacomo , Bai Wenjia , Oktay Ozan , Schuh Andreas , Suzuki Hideaki , Glocker Ben , Matthews Paul M. , Rueckert Daniel 
Published: February 2020

AbstractIn large population studies such as the UK Biobank (UKBB), quality control of the acquired images by visual assessment is unfeasible. In this paper, we apply a recently developed fully-automated quality control pipeline for cardiac MR (CMR) images to the first 19,265 short-axis (SA) cine stacks from the UKBB. We present the results for the three estimated quality metrics (heart coverage, inter-slice motion and image contrast in the cardiac region) as well as their potential associations with factors including acquisition details and subject-related phenotypes. Up to 14.2% of the analysed SA stacks had sub-optimal coverage (i.e. missing basal and/or apical slices), however most of them were limited to the first year of acquisition. Up to 16% of the stacks were affected by noticeable inter-slice motion (i.e. average inter-slice misalignment greater than 3.4 mm). Inter-slice motion was positively correlated with weight and body surface area. Only 2.1% of the stacks had an average end-diastolic cardiac image contrast below 30% of the dynamic range. These findings will be highly valuable for both the scientists involved in UKBB CMR acquisition and for the ones who use the dataset for research purposes.
Low-energy extracorporeal shock wave therapy for a model of liver cirrhosis ameliorates liver fibrosis and liver function
Authors: Ujiie Naoto , Nakano Toru , Yamada Masato , Sato Chiaki , Nakanishi Chikashi , Fujishima Fumiyoshi , Ito Kenta , Shindo Tomohiko , Shimokawa Hiroaki , Kamei Takashi 
Published: February 2020

AbstractLow-energy extracorporeal shock waves (LESW) have been studied as a new treatment for angina pectoris and several ischemic diseases because of its effect on angiogenesis and inhibition of fibrosis of the heart. The effect of LESW on fibrosis in liver cirrhosis has not been studied. The aim of this study was to verify the amelioration of liver fibrosis by LESW and elucidate its mechanisms in a rat model of drug-induced liver cirrhosis. Male Wistar rats aged 7 weeks were injected with carbon tetrachloride intraperitoneally twice a week for 12 weeks. Eight rats underwent LESW therapy (0.25 mJ/mm2, 4 Hz, 1000 shots) under general anesthesia (shock wave group). Seven rats only underwent general anesthesia (control group). Quantitative analysis showed that the area of fibrosis in the shock wave group was significantly reduced compared with the control group (11,899.9 vs. 23,525.3 pixels per field, p < 0.001). In the shock wave group, the mRNA expression of transforming growth factor (TGF)-β1 was significantly suppressed (0.40-fold, p = 0.018) and vascular endothelial growth factor-B was significantly increased (1.77-fold, p = 0.006) compared with the control group. Serum albumin was significantly higher in the shock wave group than in the control group (3.0 vs. 2.4 g/dl, p = 0.025). Aspartate aminotransferase/alanine aminotransferase ratio decreased by LESW compared with the control group (1.49 vs. 2.04, p = 0.013). These results suggest that LESW therapy ameliorates liver fibrosis by reducing the expression of TGF-β1 and increasing the expression of angiogenic factors, and improves hepatic function.
A predictive model for prostate cancer incorporating PSA molecular forms and age
Authors: Oto Julia , Fernández-Pardo Álvaro , Royo Montserrat , Hervás David , Martos Laura , Vera-Donoso César D. , Martínez Manuel , Heeb Mary J. , España Francisco , Medina Pilar , Navarro Silvia 
Published: February 2020

AbstractThe diagnostic specificity of prostate specific antigen (PSA) is limited. We aimed to characterize eight anti-PSA monoclonal antibodies (mAbs) to assess the prostate cancer (PCa) diagnostic utility of different PSA molecular forms, total (t) and free (f) PSA and PSA complexed to α1-antichymotrypsin (complexed PSA). MAbs were obtained by immunization with PSA and characterized by competition studies, ELISAs and immunoblotting. With them, we developed sensitive and specific ELISAs for these PSA molecular forms and measured them in 301 PCa patients and 764 patients with benign prostate hyperplasia, and analyzed their effectiveness to discriminate both groups using ROC curves. The free-to-total (FPR) and the complexed-to-total PSA (CPR) ratios significantly increased the diagnostic yield of tPSA. Moreover, based on model selection, we constructed a multivariable logistic regression model to predictive PCa that includes tPSA, fPSA, and age as predictors, which reached an optimism-corrected area under the ROC curve (AUC) of 0.86. Our model outperforms the predictive ability of tPSA (AUC 0.71), used in clinical practice. In conclusion, The FPR and CPR showed better diagnostic yield than tPSA. In addition, the PCa predictive model including age, fPSA and complexed PSA, outperformed tPSA detection efficacy. Our model may avoid unnecessary biopsies, preventing harmful side effects and reducing health expenses.
A Multiple Length-Scales Nanoimprinting Approach on Nanocrystalline and Strongly Deformed CuZn30 Alloys
Authors: Braun Paul , Durst Karsten 
Published: February 2020

AbstractMetallic Nanoimprinting is a new approach to form robust surface structures on metals at various length scales. The shape and size of the formed structures not only depends on the dimensions of the Nanoimprinting die but also the mechanical behaviour of the imprinted material and its microstructure. To characterise the Nanoimprinting process, a multi length-scale-approach was used by varying the cavities (widths between 20 nm and 2.76 µm) as well as the microstructure of the alloy. CuZn30 was used in different cold-worked and heat-treated conditions, with grain sizes from 100 nm up to 277 µm, thus, covering a wide range of hardening behaviours and grain size to cavity width ratios. Experimental results show that the work hardening behaviour as well as the subgrain or grain size have a major influence on the forming characteristics during Nanoimprinting and a nearly ideal plastic behaviour (no work hardening) leads to the largest extrusion heights. For materials with a pronounced work hardening, low extrusion heights were measured for all cavity widths. This work demonstrates the potential of a simple imprinting process to generate surface features on metallic materials with a width <300 nm and an aspect ratio >1.
Magnetometer with nitrogen-vacancy center in a bulk diamond for detecting magnetic nanoparticles in biomedical applications
Authors: Kuwahata Akihiro , Kitaizumi Takahiro , Saichi Kota , Sato Takumi , Igarashi Ryuji , Ohshima Takeshi , Masuyama Yuta , Iwasaki Takayuki , Hatano Mutsuko , Jelezko Fedor , Kusakabe Moriaki , Yatsui Takashi , Sekino Masaki 
Published: February 2020

AbstractWe developed a novel magnetometer that employs negatively charged nitrogen-vacancy (NV−) centers in diamond, to detect the magnetic field generated by magnetic nanoparticles (MNPs) for biomedical applications. The compact probe system is integrated into a fiber-optics platform allowing for a compact design. To detect signals from the MNPs effectively, we demonstrated, for the first time, the application of an alternating current (AC) magnetic field generated by the excitation coil of several hundred microteslas for the magnetization of MNPs in diamond quantum sensing. In the lock-in detection system, the minimum detectable AC magnetic field (at a frequency of 1.025 kHz) was approximately 57.6 nT for one second measurement time. We were able to detect the micromolar concentration of MNPs at distances of a few millimeters. These results indicate that the magnetometer with the NV− centers can detect the tiny amounts of MNPs, thereby offering potential for future biomedical applications.