bluuebunny/crossref_metadata_2025_split huggingface dataset:
Primary tumor-induced immunity eradicates disseminated tumor cells in syngeneic mouse model
Authors: Piranlioglu Raziye , Lee EunMi , Ouzounova Maria , Bollag Roni J. , Vinyard Alicia H. , Arbab Ali S. , Marasco Daniela , Guzel Mustafa , Cowell John K. , Thangaraju Muthushamy , Chadli Ahmed , Hassan Khaled A. , Wicha Max S. , Celis Esteban , Korkaya Hasan 
Published: March 2019

AbstractAlthough clinically apparent metastasis is associated with late stages of cancer development, micro-metastatic dissemination may be an early event. However, the fate of these early disseminated tumor cells (DTC) remains elusive. We show that despite their capacity to disseminate into secondary organs, 4T1 tumor models develop overt metastasis while EMT6-tumor bearing mice clear DTCs shed from primary tumors as well as those introduced by intravenous (IV) injection. Following the surgical resection of primary EMT6 tumors, mice do not develop detectable metastasis and reject IV-injected tumor cells. In contrast, these cells readily grow and metastasize in immuno-deficient athymic or Rag2−/− mice, an effect mimicked by CD8+ T-cell depletion in immunocompetent mice. Furthermore, recombinant G-CSF or adoptive transfer of granulocytic-MDSCs isolated from 4T1 tumor-bearing mice, induce metastasis by suppressing CD8+ T-cells in EMT6-primed mice. Our studies support the concept of immune surveillance providing molecular insights into the immune mechanisms during tumor progression.
Side-group chemical gating via reversible optical and electric control in a single molecule transistor
Authors: Meng Linan , Xin Na , Hu Chen , Wang Jinying , Gui Bo , Shi Junjie , Wang Cheng , Shen Cheng , Zhang Guangyu , Guo Hong , Meng Sheng , Guo Xuefeng 
Published: March 2019

AbstractBy taking advantage of large changes in geometric and electronic structure during the reversible trans–cis isomerisation, azobenzene derivatives have been widely studied for potential applications in information processing and digital storage devices. Here we report an unusual discovery of unambiguous conductance switching upon light and electric field-induced isomerisation of azobenzene in a robust single-molecule electronic device for the first time. Both experimental and theoretical data consistently demonstrate that the azobenzene sidegroup serves as a viable chemical gate controlled by electric field, which efficiently modulates the energy difference of trans and cis forms as well as the energy barrier of isomerisation. In conjunction with photoinduced switching at low biases, these results afford a chemically-gateable, fully-reversible, two-mode, single-molecule transistor, offering a fresh perspective for creating future multifunctional single-molecule optoelectronic devices in a practical way.
Exploring the colloid-to-polymer transition for ultra-low crosslinked microgels from three to two dimensions
Authors: Scotti A. , Bochenek S. , Brugnoni M. , Fernandez-Rodriguez M. A. , Schulte M. F. , Houston J. E. , Gelissen A. P. H. , Potemkin I. I. , Isa L. , Richtering W. 
Published: March 2019

AbstractMicrogels are solvent-swollen nano- and microparticles that show prevalent colloidal-like behavior despite their polymeric nature. Here we study ultra-low crosslinked poly(N-isopropylacrylamide) microgels (ULC), which can behave like colloids or flexible polymers depending on dimensionality, compression or other external stimuli. Small-angle neutron scattering shows that the structure of the ULC microgels in bulk aqueous solution is characterized by a density profile that decays smoothly from the center to a fuzzy surface. Their phase behavior and rheological properties are those of soft colloids. However, when these microgels are confined at an oil-water interface, their behavior resembles that of flexible macromolecules. Once monolayers of ultra-low crosslinked microgels are compressed, deposited on solid substrate and studied with atomic-force microscopy, a concentration-dependent topography is observed. Depending on the compression, these microgels can behave as flexible polymers, covering the substrate with a uniform film, or as colloidal microgels leading to a monolayer of particles.
Over-exploitation of natural resources is followed by inevitable declines in economic growth and discount rate
Authors: Lampert Adam 
Published: March 2019

AbstractA major challenge in environmental policymaking is determining whether and how fast our society should adopt sustainable management methods. These decisions may have long-lasting effects on the environment, and therefore, they depend critically on the discount factor, which determines the relative values given to future environmental goods compared to present ones. The discount factor has been a major focus of debate in recent decades, and nevertheless, the potential effect of the environment and its management on the discount factor has been largely ignored. Here we show that to maximize social welfare, policymakers need to consider discount factors that depend on changes in natural resource harvest at the global scale. Particularly, the more our society over-harvests today, the more policymakers should discount the near future, but the less they should discount the far future. This results in a novel discount formula that implies significantly higher values for future environmental goods.
Targeting bivalency de-represses Indian Hedgehog and inhibits self-renewal of colorectal cancer-initiating cells
Authors: Lima-Fernandes Evelyne , Murison Alex , da Silva Medina Tiago , Wang Yadong , Ma Anqi , Leung Cherry , Luciani Genna M. , Haynes Jennifer , Pollett Aaron , Zeller Constanze , Duan Shili , Kreso Antonija , Barsyte-Lovejoy Dalia , Wouters Bradly G. , Jin Jian , Carvalho Daniel D. De , Lupien Mathieu , Arrowsmith Cheryl H. , O’Brien Catherine A. 
Published: March 2019

AbstractIn embryonic stem cells, promoters of key lineage-specific differentiation genes are found in a bivalent state, having both activating H3K4me3 and repressive H3K27me3 histone marks, making them poised for transcription upon loss of H3K27me3. Whether cancer-initiating cells (C-ICs) have similar epigenetic mechanisms that prevent lineage commitment is unknown. Here we show that colorectal C-ICs (CC-ICs) are maintained in a stem-like state through a bivalent epigenetic mechanism. Disruption of the bivalent state through inhibition of the H3K27 methyltransferase EZH2, resulted in decreased self-renewal of patient-derived C-ICs. Epigenomic analyses revealed that the promoter of Indian Hedgehog (IHH), a canonical driver of normal colonocyte differentiation, exists in a bivalent chromatin state. Inhibition of EZH2 resulted in de-repression of IHH, decreased self-renewal, and increased sensitivity to chemotherapy in vivo. Our results reveal an epigenetic block to differentiation in CC-ICs and demonstrate the potential for epigenetic differentiation therapy of a solid tumour through EZH2 inhibition.
Scale law of complex deformation transitions of nanotwins in stainless steel
Authors: Chen A. Y. , Zhu L. L. , Sun L. G. , Liu J. B. , Wang H. T. , Wang X. Y. , Yang J. H. , Lu J. 
Published: March 2019

AbstractUnderstanding the deformation behavior of metallic materials containing nanotwins (NTs), which can enhance both strength and ductility, is useful for tailoring microstructures at the micro- and nano- scale to enhance mechanical properties. Here, we construct a clear deformation pattern of NTs in austenitic stainless steel by combining in situ tensile tests with a dislocation-based theoretical model and molecular dynamics simulations. Deformation NTs are observed in situ using a transmission electron microscope in different sample regions containing NTs with twin-lamella-spacing (λ) varying from a few nanometers to hundreds of nanometers. Two deformation transitions are found experimentally: from coactivated twinning/detwinning (λ < 5 nm) to secondary twinning (5 nm < λ < 129 nm), and then to the dislocation glide (λ > 129 nm). The simulation results are highly consistent with the observed strong λ-effect, and reveal the intrinsic transition mechanisms induced by partial dislocation slip.
Automatic mapping of atoms across both simple and complex chemical reactions
Authors: Jaworski Wojciech , Szymkuć Sara , Mikulak-Klucznik Barbara , Piecuch Krzysztof , Klucznik Tomasz , Kaźmierowski Michał , Rydzewski Jan , Gambin Anna , Grzybowski Bartosz A. 
Published: March 2019

AbstractMapping atoms across chemical reactions is important for substructure searches, automatic extraction of reaction rules, identification of metabolic pathways, and more. Unfortunately, the existing mapping algorithms can deal adequately only with relatively simple reactions but not those in which expert chemists would benefit from computer’s help. Here we report how a combination of algorithmics and expert chemical knowledge significantly improves the performance of atom mapping, allowing the machine to deal with even the most mechanistically complex chemical and biochemical transformations. The key feature of our approach is the use of few but judiciously chosen reaction templates that are used to generate plausible “intermediate” atom assignments which then guide a graph-theoretical algorithm towards the chemically correct isomorphic mappings. The algorithm performs significantly better than the available state-of-the-art reaction mappers, suggesting its uses in database curation, mechanism assignments, and – above all – machine extraction of reaction rules underlying modern synthesis-planning programs.
Assembly of complex viruses exemplified by a halophilic euryarchaeal virus
Authors: De Colibus Luigi , Roine Elina , Walter Thomas S. , Ilca Serban L. , Wang Xiangxi , Wang Nan , Roseman Alan M. , Bamford Dennis , Huiskonen Juha T. , Stuart David I. 
Published: March 2019

AbstractMany of the largest known viruses belong to the PRD1-adeno structural lineage characterised by conserved pseudo-hexameric capsomers composed of three copies of a single major capsid protein (MCP). Here, by high-resolution cryo-EM analysis, we show that a class of archaeal viruses possess hetero-hexameric MCPs which mimic the PRD1-adeno lineage trimer. These hetero-hexamers are built from heterodimers and utilise a jigsaw-puzzle system of pegs and holes, and underlying minor capsid proteins, to assemble the capsid laterally from the 5-fold vertices. At these vertices proteins engage inwards with the internal membrane vesicle whilst 2-fold symmetric horn-like structures protrude outwards. The horns are assembled from repeated globular domains attached to a central spine, presumably facilitating multimeric attachment to the cell receptor. Such viruses may represent precursors of the main PRD1-adeno lineage, similarly engaging cell-receptors via 5-fold spikes and using minor proteins to define particle size.
Quantifying the triboelectric series
Authors: Zou Haiyang , Zhang Ying , Guo Litong , Wang Peihong , He Xu , Dai Guozhang , Zheng Haiwu , Chen Chaoyu , Wang Aurelia Chi , Xu Cheng , Wang Zhong Lin 
Published: March 2019

AbstractTriboelectrification is a well-known phenomenon that commonly occurs in nature and in our lives at any time and any place. Although each and every material exhibits triboelectrification, its quantification has not been standardized. A triboelectric series has been qualitatively ranked with regards to triboelectric polarization. Here, we introduce a universal standard method to quantify the triboelectric series for a wide range of polymers, establishing quantitative triboelectrification as a fundamental materials property. By measuring the tested materials with a liquid metal in an environment under well-defined conditions, the proposed method standardizes the experimental set up for uniformly quantifying the surface triboelectrification of general materials. The normalized triboelectric charge density is derived to reveal the intrinsic character of polymers for gaining or losing electrons. This quantitative triboelectric series may serve as a textbook standard for implementing the application of triboelectrification for energy harvesting and self-powered sensing.
Prominence of the tropics in the recent rise of global nitrogen pollution
Authors: Lee Minjin , Shevliakova Elena , Stock Charles A. , Malyshev Sergey , Milly P. C. D. 
Published: March 2019

AbstractNitrogen (N) pollution is shaped by multiple processes, the combined effects of which remain uncertain, particularly in the tropics. We use a global land biosphere model to analyze historical terrestrial-freshwater N budgets, considering the effects of anthropogenic N inputs, atmospheric CO2, land use, and climate. We estimate that globally, land currently sequesters 11 (10–13)% of annual N inputs. Some river basins, however, sequester >50% of their N inputs, buffering coastal waters against eutrophication and society against greenhouse gas-induced warming. Other basins, releasing >25% more than they receive, are mostly located in the tropics, where recent deforestation, agricultural intensification, and/or exports of land N storage can create large N pollution sources. The tropics produce 56 ± 6% of global land N pollution despite covering only 34% of global land area and receiving far lower amounts of fertilizers than the extratropics. Tropical land use should thus be thoroughly considered in managing global N pollution.
Uncertainty in ensembles of global biodiversity scenarios
Authors: Thuiller Wilfried , Guéguen Maya , Renaud Julien , Karger Dirk N. , Zimmermann Niklaus E. 
Published: March 2019

AbstractWhile there is a clear demand for scenarios that provide alternative states in biodiversity with respect to future emissions, a thorough analysis and communication of the associated uncertainties is still missing. Here, we modelled the global distribution of ~11,500 amphibian, bird and mammal species and project their climatic suitability into the time horizon 2050 and 2070, while varying the input data used. By this, we explore the uncertainties originating from selecting species distribution models (SDMs), dispersal strategies, global circulation models (GCMs), and representative concentration pathways (RCPs). We demonstrate the overwhelming influence of SDMs and RCPs on future biodiversity projections, followed by dispersal strategies and GCMs. The relative importance of each component varies in space but also with the selected sensitivity metrics and with species’ range size. Overall, this means using multiple SDMs, RCPs, dispersal assumptions and GCMs is a necessity in any biodiversity scenario assessment, to explicitly report associated uncertainties.
Publisher Correction: Accurate autocorrelation modeling substantially improves fMRI reliability
Authors: Olszowy Wiktor , Aston John , Rua Catarina , Williams Guy B. 
Published: March 2019

The original HTML version of this Article had an incorrect Published online date of 25 December 2019; it should have been 21 March 2019. This has been corrected in the HTML version of the Article. The PDF version was correct from the time of publication.
Automated estimation of materials parameter from X-ray absorption and electron energy-loss spectra with similarity measures
Authors: Suzuki Yuta , Hino Hideitsu , Kotsugi Masato , Ono Kanta 
Published: March 2019

AbstractMaterials informatics has significantly accelerated the discovery and analysis of materials in the past decade. One of the key contributors to accelerated materials discovery is the use of on-the-fly data analysis with high-throughput experiments, which has given rise to the need for accelerated and accurate automated estimation of the properties of materials. In this regard, spectroscopic data are widely used for materials discovery because these data include essential information about materials. An important requirement for the realisation of the automated estimation of materials parameters is the selection of a similarity measure, or kernel function. The required measure should be robust in terms of peak shifting, peak broadening, and noise. However, the determination of appropriate similarity measures for spectra and the automated estimation of materials parameters from these spectra currently remain unresolved. We examined major similarity measures to evaluate the similarity of both X-ray absorption and electron energy-loss spectra. The similarity measures show good correspondence with the materials parameter, that is, the crystal-field parameter, in all measures. The Pearson's correlation coefficient was the highest for the robustness against noise and peak broadening. We obtained the regression model for the crystal-field parameter 10 Dq from the similarity of the spectra. The regression model enabled the materials parameter, that is, 10 Dq, to be automatically estimated from the spectra. With regard to research progress in similarity measures, this methodology would make it possible to extract the materials parameter from a large-scale dataset of experimental data.
An artificial neuron implemented on an actual quantum processor
Authors: Tacchino Francesco , Macchiavello Chiara , Gerace Dario , Bajoni Daniele 
Published: March 2019

AbstractArtificial neural networks are the heart of machine learning algorithms and artificial intelligence. Historically, the simplest implementation of an artificial neuron traces back to the classical Rosenblatt’s “perceptron”, but its long term practical applications may be hindered by the fast scaling up of computational complexity, especially relevant for the training of multilayered perceptron networks. Here we introduce a quantum information-based algorithm implementing the quantum computer version of a binary-valued perceptron, which shows exponential advantage in storage resources over alternative realizations. We experimentally test a few qubits version of this model on an actual small-scale quantum processor, which gives answers consistent with the expected results. We show that this quantum model of a perceptron can be trained in a hybrid quantum-classical scheme employing a modified version of the perceptron update rule and used as an elementary nonlinear classifier of simple patterns, as a first step towards practical quantum neural networks efficiently implemented on near-term quantum processing hardware.
A coupled microscopy approach to assess the nano-landscape of weathering
Authors: Lybrand Rebecca A. , Austin Jason C. , Fedenko Jennifer , Gallery Rachel E. , Rooney Erin , Schroeder Paul A. , Zaharescu Dragos G. , Qafoku Odeta 
Published: March 2019

AbstractMineral weathering is a balanced interplay among physical, chemical, and biological processes. Fundamental knowledge gaps exist in characterizing the biogeochemical mechanisms that transform microbe-mineral interfaces at submicron scales, particularly in complex field systems. Our objective was to develop methods targeting the nanoscale by using high-resolution microscopy to assess biological and geochemical drivers of weathering in natural settings. Basalt, granite, and quartz (53–250 µm) were deployed in surface soils (10 cm) of three ecosystems (semiarid, subhumid, humid) for one year. We successfully developed a reference grid method to analyze individual grains using: (1) helium ion microscopy to capture micron to sub-nanometer imagery of mineral-organic interactions; and (2) scanning electron microscopy to quantify elemental distribution on the same surfaces via element mapping and point analyses. We detected locations of biomechanical weathering, secondary mineral precipitation, biofilm formation, and grain coatings across the three contrasting climates. To our knowledge, this is the first time these coupled microscopy techniques were applied in the earth and ecosystem sciences to assess microbe-mineral interfaces and in situ biological contributors to incipient weathering.
Pretreatment and gaseous radiocarbon dating of 40–100 mg archaeological bone
Authors: Fewlass H. , Tuna T. , Fagault Y. , Hublin J.-J. , Kromer B. , Bard E. , Talamo S. 
Published: March 2019

AbstractRadiocarbon dating archaeological bone typically requires 300–1000 mg material using standard protocols. We report the results of reducing sample size at both the pretreatment and 14C measurement stages for eight archaeological bones spanning the radiocarbon timescale at different levels of preservation. We adapted our standard collagen extraction protocol specifically for <100 mg bone material. Collagen was extracted at least twice (from 37–100 mg material) from each bone. Collagen aliquots containing <100 μg carbon were measured in replicate using the gas ion source of the AixMICADAS. The effect of sample size reduction in the EA-GIS-AMS system was explored by measuring 14C of collagen containing either ca. 30 μg carbon or ca. 90 μg carbon. The gas dates were compared to standard-sized graphite dates extracted from large amounts (500–700 mg) of bone material pretreated with our standard protocol. The results reported here demonstrate that we are able to reproduce accurate radiocarbon dates from <100 mg archaeological bone material back to 40,000 BP.
Regional variation in life history traits and plastic responses to temperature of the major malaria vector Nyssorhynchus darlingi in Brazil
Authors: Chu V. M. , Sallum M. A. M. , Moore T. E. , Lainhart W. , Schlichting C. D. , Conn J. E. 
Published: March 2019

AbstractThe primary Brazilian malaria vector, Nyssorhynchus darlingi (formerly Anopheles darlingi), ranges from 0°S–23°S across three biomes (Amazonia, Cerrado, Mata Atlântica). Rising temperatures will increase mosquito developmental rates, and models predict future malaria transmission by Ny. darlingi in Brazil will shift southward. We reared F1Ny. darlingi (progeny of field-collected females from 4 state populations across Brazil) at three temperatures (20, 24, 28 °C) and measured key life-history traits. Our results reveal geographic variation due to both genetic differences among localities and plastic responses to temperature differences. Temperature significantly altered all traits: faster larval development, shorter adult life and overall lifespan, and smaller body sizes were seen at 28 °C versus 20 °C. Low-latitude Amazonia mosquitoes had the fastest larval development at all temperatures, but at 28 °C, average development rate of high-latitude Mata Atlântica mosquitoes was accelerated and equivalent to low-latitude Amazonia. Body size of adult mosquitoes from the Mata Atlântica remained larger at all temperatures. We detected genetic variation in the plastic responses among mosquitoes from different localities, with implications for malaria transmission under climate change. Faster development combined with larger body size, without a tradeoff in adult longevity, suggests vectorial capacities of some Mata Atlântica populations may significantly increase under warming climates.
The same domain of Su(Hw) is required for enhancer blocking and direct promoter repression
Authors: Melnikova Larisa , Elizar’ev Pavel , Erokhin Maksim , Molodina Varvara , Chetverina Darya , Kostyuchenko Margarita , Georgiev Pavel , Golovnin Anton 
Published: March 2019

AbstractSuppressor of Hairy-wing [Su(Hw)] is a DNA-binding architectural protein that participates in the organization of insulators and repression of promoters in Drosophila. This protein contains acidic regions at both ends and a central cluster of 12 zinc finger domains, some of which are involved in the specific recognition of the binding site. One of the well-described in vivo function of Su(Hw) is the repression of transcription of neuronal genes in oocytes. Here, we have found that the same Su(Hw) C-terminal region (aa 720–892) is required for insulation as well as for promoter repression. The best characterized partners of Su(Hw), CP190 and Mod(mdg4)-67.2, are not involved in the repression of neuronal genes. Taken together, these results suggest that an unknown protein or protein complex binds to the C-terminal region of Su(Hw) and is responsible for the direct repression activity of Su(Hw).