bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sustainable power generation for at least one month from ambient humidity using unique nanofluidic diode
Authors: Zhang Yong , Yang Tingting , Shang Kedong , Guo Fengmei , Shang Yuanyuan , Chang Shulong , Cui Licong , Lu Xulei , Jiang Zhongbao , Zhou Jian , Fu Chunqiao , He Qi-Chang 
Published: June 2022

AbstractThe continuous energy-harvesting in moisture environment is attractive for the development of clean energy source. Controlling the transport of ionized mobile charge in intelligent nanoporous membrane systems is a promising strategy to develop the moisture-enabled electric generator. However, existing designs still suffer from low output power density. Moreover, these devices can only produce short-term (mostly a few seconds or a few hours, rarely for a few days) voltage and current output in the ambient environment. Here, we show an ionic diode–type hybrid membrane capable of continuously generating energy in the ambient environment. The built-in electric field of the nanofluidic diode-type PN junction helps the selective ions separation and the steady-state one-way ion charge transfer. This directional ion migration is further converted to electron transportation at the surface of electrodes via oxidation-reduction reaction and charge adsorption, thus resulting in a continuous voltage and current with high energy conversion efficiency.
Phasing analysis of lung cancer genomes using a long read sequencer
Authors: Sakamoto Yoshitaka , Miyake Shuhei , Oka Miho , Kanai Akinori , Kawai Yosuke , Nagasawa Satoi , Shiraishi Yuichi , Tokunaga Katsushi , Kohno Takashi , Seki Masahide , Suzuki Yutaka , Suzuki Ayako 
Published: June 2022

AbstractChromosomal backgrounds of cancerous mutations still remain elusive. Here, we conduct the phasing analysis of non-small cell lung cancer specimens of 20 Japanese patients. By the combinatory use of short and long read sequencing data, we obtain long phased blocks of 834 kb in N50 length with >99% concordance rate. By analyzing the obtained phasing information, we reveal that several cancer genomes harbor regions in which mutations are unevenly distributed to either of two haplotypes. Large-scale chromosomal rearrangement events, which resemble chromothripsis events but have smaller scales, occur on only one chromosome, and these events account for the observed biased distributions. Interestingly, the events are characteristic of EGFR mutation-positive lung adenocarcinomas. Further integration of long read epigenomic and transcriptomic data reveal that haploid chromosomes are not always at equivalent transcriptomic/epigenomic conditions. Distinct chromosomal backgrounds are responsible for later cancerous aberrations in a haplotype-specific manner.
Single-cell profiling of the antigen-specific response to BNT162b2 SARS-CoV-2 RNA vaccine
Authors: Kramer Kevin J. , Wilfong Erin M. , Voss Kelsey , Barone Sierra M. , Shiakolas Andrea R. , Raju Nagarajan , Roe Caroline E. , Suryadevara Naveenchandra , Walker Lauren M. , Wall Steven C. , Paulo Ariana , Schaefer Samuel , Dahunsi Debolanle , Westlake Camille S. , Crowe James E. , Carnahan Robert H. , Rathmell Jeffrey C. , Bonami Rachel H. , Georgiev Ivelin S. , Irish Jonathan M. 
Published: June 2022

AbstractRNA-based vaccines against SARS-CoV-2 have proven critical to limiting COVID-19 disease severity and spread. Cellular mechanisms driving antigen-specific responses to these vaccines, however, remain uncertain. Here we identify and characterize antigen-specific cells and antibody responses to the RNA vaccine BNT162b2 using multiple single-cell technologies for in depth analysis of longitudinal samples from a cohort of healthy participants. Mass cytometry and unbiased machine learning pinpoint an expanding, population of antigen-specific memory CD4+and CD8+T cells with characteristics of follicular or peripheral helper cells. B cell receptor sequencing suggest progression from IgM, with apparent cross-reactivity to endemic coronaviruses, to SARS-CoV-2-specific IgA and IgG memory B cells and plasmablasts. Responding lymphocyte populations correlate with eventual SARS-CoV-2 IgG, and a participant lacking these cell populations failed to sustain SARS-CoV-2-specific antibodies and experienced breakthrough infection. These integrated proteomic and genomic platforms identify an antigen-specific cellular basis of RNA vaccine-based immunity.
The impact of species-wide gene expression variation on Caenorhabditis elegans complex traits
Authors: Zhang Gaotian , Roberto Nicole M. , Lee Daehan , Hahnel Steffen R. , Andersen Erik C. 
Published: June 2022

AbstractPhenotypic variation in organism-level traits has been studied in Caenorhabditis elegans wild strains, but the impacts of differences in gene expression and the underlying regulatory mechanisms are largely unknown. Here, we use natural variation in gene expression to connect genetic variants to differences in organismal-level traits, including drug and toxicant responses. We perform transcriptomic analyses on 207 genetically distinct C. elegans wild strains to study natural regulatory variation of gene expression. Using this massive dataset, we perform genome-wide association mappings to investigate the genetic basis underlying gene expression variation and reveal complex genetic architectures. We find a large collection of hotspots enriched for expression quantitative trait loci across the genome. We further use mediation analysis to understand how gene expression variation could underlie organism-level phenotypic variation for a variety of complex traits. These results reveal the natural diversity in gene expression and possible regulatory mechanisms in this keystone model organism, highlighting the promise of using gene expression variation to understand how phenotypic diversity is generated.
Consecutive topological phase transitions and colossal magnetoresistance in a magnetic topological semimetal
Authors: Du Feng , Yang Lin , Nie Zhiyong , Wu Ninghua , Li Yong , Luo Shuaishuai , Chen Ye , Su Dajun , Smidman Michael , Shi Youguo , Cao Chao , Steglich Frank , Song Yu , Yuan Huiqiu 
Published: June 2022

AbstractThe combination of magnetic symmetries and electronic band topology provides a promising route for realizing topologically nontrivial quasiparticles, and the manipulation of magnetic structures may enable the switching between topological phases, with the potential for achieving functional physical properties. Here, we report measurements of the electrical resistivity of EuCd2As2 under pressure, which show an intriguing insulating dome at pressures between pc1 ~ 1.0 GPa and pc2 ~ 2.0 GPa, situated between two regimes with metallic transport. The insulating state can be fully suppressed by a small magnetic field, leading to a colossal negative magnetoresistance on the order of 105%, accessible via a modest field of ~ 0.2 T. First-principles calculations reveal that the dramatic evolution of the resistivity under pressure can be attributed to consecutive transitions of EuCd2As2 from a magnetic topological insulator to a trivial insulator, and then to a Weyl semimetal, with the latter resulting from a pressure-induced change in the magnetic ground state. Similarly, the colossal magnetoresistance results from a field-induced polarization of the magnetic moments, transforming EuCd2As2 from a trivial insulator to a Weyl semimetal. These findings underscore weak exchange couplings and weak magnetic anisotropy as ingredients for discovering tunable magnetic topological materials with desirable functionalities.
Long-term ice phenology records spanning up to 578 years for 78 lakes around the Northern Hemisphere
Authors: Sharma Sapna , Filazzola Alessandro , Nguyen Thi , Imrit M. Arshad , Blagrave Kevin , Bouffard Damien , Daly Julia , Feldman Harley , Feldsine Natalie , Hendricks-Franssen Harrie-Jan , Granin Nikolay , Hecock Richard , L’Abée-Lund Jan Henning , Hopkins Ed , Howk Neil , Iacono Michael , Knoll Lesley B. , Korhonen Johanna , Malmquist Hilmar J. , Marszelewski Włodzimierz , Matsuzaki Shin-Ichiro S. , Miyabara Yuichi , Miyasaka Kiyoshi , Mills Alexander , Olson Lolita , Peters Theodore W. , Richardson David C. , Robertson Dale M. , Rudstam Lars , Wain Danielle , Waterfield Holly , Weyhenmeyer Gesa A. , Wiltse Brendan , Yao Huaxia , Zhdanov Andry , Magnuson John J. 
Published: June 2022

AbstractIn recent decades, lakes have experienced unprecedented ice loss with widespread ramifications for winter ecological processes. The rapid loss of ice, resurgence of winter biology, and proliferation of remote sensing technologies, presents a unique opportunity to integrate disciplines to further understand the broad spatial and temporal patterns in ice loss and its consequences. Here, we summarize ice phenology records for 78 lakes in 12 countries across North America, Europe, and Asia to permit the inclusion and harmonization of in situ ice phenology observations in future interdisciplinary studies. These ice records represent some of the longest climate observations directly collected by people. We highlight the importance of applying the same definition of ice-on and ice-off within a lake across the time-series, regardless of how the ice is observed, to broaden our understanding of ice loss across vast spatial and temporal scales.
Generating FAIR research data in experimental tribology
Authors: Garabedian Nikolay T. , Schreiber Paul J. , Brandt Nico , Zschumme Philipp , Blatter Ines L. , Dollmann Antje , Haug Christian , Kümmel Daniel , Li Yulong , Meyer Franziska , Morstein Carina E. , Rau Julia S. , Weber Manfred , Schneider Johannes , Gumbsch Peter , Selzer Michael , Greiner Christian 
Published: June 2022

AbstractSolutions for the generation of FAIR (Findable, Accessible, Interoperable, and Reusable) data and metadata in experimental tribology are currently lacking. Nonetheless, FAIR data production is a promising path for implementing scalable data science techniques in tribology, which can lead to a deeper understanding of the phenomena that govern friction and wear. Missing community-wide data standards, and the reliance on custom workflows and equipment are some of the main challenges when it comes to adopting FAIR data practices. This paper, first, outlines a sample framework for scalable generation of FAIR data, and second, delivers a showcase FAIR data package for a pin-on-disk tribological experiment. The resulting curated data, consisting of 2,008 key-value pairs and 1,696 logical axioms, is the result of (1) the close collaboration with developers of a virtual research environment, (2) crowd-sourced controlled vocabulary, (3) ontology building, and (4) numerous – seemingly – small-scale digital tools. Thereby, this paper demonstrates a collection of scalable non-intrusive techniques that extend the life, reliability, and reusability of experimental tribological data beyond typical publication practices.
Greenhouse gas emissions from municipal wastewater treatment facilities in China from 2006 to 2019
Authors: Wang Dan , Ye Weili , Wu Guangxue , Li Ruoqi , Guan Yuru , Zhang Wei , Wang Junxia , Shan Yuli , Hubacek Klaus 
Published: June 2022

AbstractWastewater treatment plants (WWTPs) alleviate water pollution but also induce resource consumption and environmental impacts especially greenhouse gas (GHG) emissions. Mitigating GHG emissions of WWTPs can contribute to achieving carbon neutrality in China. But there is still a lack of a high-resolution and time-series GHG emission inventories of WWTPs in China. In this study, we construct a firm-level emission inventory of WWTPs for CH4, N2O and CO2 emissions from different wastewater treatment processes, energy consumption and effluent discharge for the time-period from 2006 to 2019. We aim to develop a transparent, verifiable and comparable WWTP GHG emission inventory to support GHG mitigation of WWTPs in China.
Gridded value-added of primary, secondary and tertiary industries in China under Shard Socioeconomic Pathways
Authors: Jing Cheng , Su Buda , Zhai Jianqing , Wang Yanjun , Lin Qigen , Gao Miaoni , Jiang Shan , Chen Ziyan , Jiang Tong 
Published: June 2022

AbstractGridded distribution of future economy plays an important role in climate change impact assessment. The trend of the output values of different industries is crucial for a variety of planning and design processes. Under the Shared Socioeconomic Pathways (SSPs) global framework, the multidimensional model and Cobb-Douglas production model with localized population and economic parameters are used to develop the annual provincial population and value-added of primary, secondary and tertiary industries in China from 2020 to 2100. The most recently implemented fertility-promoting and industrial planning policies in China are considered in our projections. We build multiple models to evaluate the impact of different types of land use on the value-added of primary, secondary and tertiary industries and then gridded the projected value-added to a 5′ × 5′ resolution, based on recorded county-level economic statistics and gridded land use. The reliability of estimations is verified against 2011–2019 statistical data and multiple published datasets. The high-resolution economic dataset is expected to contribute greatly to national and regional climate change impact, adaptation, and vulnerability studies.
Cat predation of Kangaroo Island dunnarts in aftermath of bushfire
Authors: Hodgens Patrick , Groffen Heidi , O’Handley Ryan , Vyas Ajai , Lignereux Louis 
Published: June 2022

AbstractThe Kangaroo Island dunnart (Sminthopsis aitkeni) is a critically endangered marsupial species with an estimated population of ~ 500 individuals found only on the western end of Australia's third largest island. Severe bushfires recently burnt more than 98% of its known and predicted habitat that was already under pressure from fragmentation. After the fires, we found evidence of eight individual dunnarts in the digestive tract of seven feral cats, out of the 86 collected in remaining unburnt refugia; thus demonstrating the need of immediate risk management efforts after large-scale stochastic events.
Label-free morphological sub-population cytometry for sensitive phenotypic screening of heterogenous neural disease model cells
Authors: Imai Yuta , Iida Madoka , Kanie Kei , Katsuno Masahisa , Kato Ryuji 
Published: June 2022

AbstractLabel-free image analysis has several advantages with respect to the development of drug screening platforms. However, the evaluation of drug-responsive cells based exclusively on morphological information is challenging, especially in cases of morphologically heterogeneous cells or a small subset of drug-responsive cells. We developed a novel label-free cell sub-population analysis method called “in silico FOCUS (in silico analysis of featured-objects concentrated by anomaly discrimination from unit space)” to enable robust phenotypic screening of morphologically heterogeneous spinal and bulbar muscular atrophy (SBMA) model cells. This method with the anomaly discrimination concept can sensitively evaluate drug-responsive cells as morphologically anomalous cells through in silico cytometric analysis. As this algorithm requires only morphological information of control cells for training, no labeling or drug administration experiments are needed. The responses of SBMA model cells to dihydrotestosterone revealed that in silico FOCUS can identify the characteristics of a small sub-population with drug-responsive phenotypes to facilitate robust drug response profiling. The phenotype classification model confirmed with high accuracy the SBMA-rescuing effect of pioglitazone using morphological information alone. In silico FOCUS enables the evaluation of delicate quality transitions in cells that are difficult to profile experimentally, including primary cells or cells with no known markers.
Receptor tyrosine kinase inhibitors negatively impact on pro-reparative characteristics of human cardiac progenitor cells
Authors: Smith Andrew J. , Ruchaya Prashant , Walmsley Robert , Wright Kathleen E. , Lewis-McDougall Fiona C. , Bond Jacquelyn , Ellison-Hughes Georgina M. 
Published: June 2022

AbstractReceptor tyrosine kinase inhibitors improve cancer survival but their cardiotoxicity requires investigation. We investigated these inhibitors’ effects on human cardiac progenitor cells in vitro and rat heart in vivo. We applied imatinib, sunitinib or sorafenib to human cardiac progenitor cells, assessing cell viability, proliferation, stemness, differentiation, growth factor production and second messengers. Alongside, sunitinib effects were assessed in vivo. Inhibitors decreased (p < 0.05) cell viability, at levels equivalent to ‘peak’ (24 h; imatinib: 91.5 ± 0.9%; sunitinib: 83.9 ± 1.8%; sorafenib: 75.0 ± 1.6%) and ‘trough’ (7 days; imatinib: 62.3 ± 6.2%; sunitinib: 86.2 ± 3.5%) clinical plasma levels, compared to control (100% viability). Reduced (p < 0.05) cell cycle activity was seen with imatinib (29.3 ± 4.3% cells in S/G2/M-phases; 50.3 ± 5.1% in control). Expression of PECAM-1, Nkx2.5, Wnt2, linked with cell differentiation, were decreased (p < 0.05) 2, 2 and 6-fold, respectively. Expression of HGF, p38 and Akt1 in cells was reduced (p < 0.05) by sunitinib. Second messenger (p38 and Akt1) blockade affected progenitor cell phenotype, reducing c-kit and growth factor (HGF, EGF) expression. Sunitinib for 9 days (40 mg/kg, i.p.) in adult rats reduced (p < 0.05) cardiac ejection fraction (68 ± 2%vs. baseline (83 ± 1%) and control (84 ± 4%)) and reduced progenitor cell numbers. Receptor tyrosine kinase inhibitors reduce cardiac progenitor cell survival, proliferation, differentiation and reparative growth factor expression.
Active control of dielectric nanoparticle optical resonance through electrical charging
Authors: Gao Xuebang , Xie Li , Zhou Jùn 
Published: June 2022

AbstractA novel method for active control of resonance position of dielectric nanoparticles by increasing the excess charges carried by the nanoparticles is proposed in this paper. We show that as the excess charges carried by the particle increase, the oscillation frequency of excess charges will gradually increase, when it is equal to the incident frequency, resonance occurs due to resonant excitation of the excess charges. What is more, the formula of charges carried by an individual particle required to excite the resonance at any wavelength position is proposed. The resonance position can be directly controlled by means of particle charging, and the enhancement of resonance intensity is more obvious. This work has opened new avenues for the active control of plasmon resonances, which shows great promise for realizing tunable optical properties of dielectric nanoparticles.
Metabolic risk assessment in children and adolescents using the tri-ponderal mass index
Authors: Seo Young-Jun , Shim Young Suk , Lee Hae Sang , Hwang Jin Soon 
Published: June 2022

AbstractWe assessed the risk of metabolic syndrome in children and adolescents who were classified using the tri-ponderal mass index (TMI) with data from the Korea National Health and Nutrition Examination Survey (KNHANES). Data from 10 to 18-year-old subjects that were overweight or obese (n = 1362) were extracted from the KNHANES 2007–2018. Weight classifications were determined by TMI and included overweight and Class I, Class II, and Class III obesity. The standard deviation scores (SDS) of weight, waist circumference, and body mass index (BMI) as well as cardiometabolic risk factors, including blood pressure, serum glucose levels, total cholesterol (T-C), triglycerides, HDL-c, and low-density lipoprotein cholesterol (LDL-c), worsened with the severity of obesity. Most risk factors showed a linear association with the severity increase, except for fasting glucose levels, T-C, and LDL-c. The prevalence of cardiometabolic risks also increased with the severity of obesity, which developed earlier in boys than in girls. The risk of metabolic syndrome significantly increased with the severity of obesity in both unadjusted and adjusted analyses. TMI reflected the severity of obesity and predicted the risk of metabolic syndrome and its components. Therefore, clinical applications of TMI could be a useful to identify the incidence of childhood obesity and metabolic syndromes.
Cluster analysis categorizes five phenotypes of pulmonary tuberculosis
Authors: Koo Hyeon-Kyoung , Min Jinsoo , Kim Hyung Woo , Ko Yousang , Oh Jee Youn , Jeong Yun-Jeong , Kang Hyeon Hui , Kang Ji Young , Lee Sung-Soon , Seo Minseok , Silverman Edwin K. , Kim Ju Sang , Park Jae Seuk 
Published: June 2022

AbstractTuberculosis (TB) has a heterogeneous phenotype, which makes it challenging to diagnose. Our study aimed to identify TB phenotypes through cluster analysis and compare their initial symptomatic, microbiological and radiographic characteristics. We systemically collected data of notified TB patients notified in Korea and constructed a prospective, observational cohort database. Cluster analysis was performed using K-means clustering, and the variables to be included were determined by correlation network. A total of 4,370 subjects with pulmonary TB were enrolled in the study. Based on the correlation network, age and body mass index (BMI) were selected for the cluster analysis. Five clusters were identified and characterised as follows: (1) middle-aged overweight male dominance, (2) young-aged relatively female dominance without comorbidities, (3) middle-aged underweight male dominance, (4) overweight elderly with comorbidities and (5) underweight elderly with comorbidities. All clusters had distinct demographic and symptomatic characteristics. Initial microbiologic burdens and radiographic features also varied, including the presence of cavities and bilateral infiltration, which reflect TB-related severity. Cluster analysis of age and BMI identified five phenotypes of pulmonary TB with significant differences at initial clinical presentations. Further studies are necessary to validate our results and to assess their clinical implications.
Single-cell transcriptomic analysis of neuroepithelial cells and other cell types of the gills of zebrafish (Danio rerio) exposed to hypoxia
Authors: Pan Wen , Godoy Rafael Soares , Cook David P. , Scott Angela L. , Nurse Colin A. , Jonz Michael G. 
Published: June 2022

AbstractThe fish gill is a multifunctional organ involved in numerous physiological processes, such as gas exchange and sensing of hypoxia by respiratory chemoreceptors, called neuroepithelial cells (NECs). Many studies have focused on zebrafish (Danio rerio) to investigate the structure, function and development of the gills, yet the transcriptomic profile of most gill cells remains obscure. We present the results of a comprehensive transcriptomic analysis of the gills of zebrafish using single-cell RNA sequencing (scRNA‐seq). Gill cells from ETvmat2:EGFP zebrafish were individually labelled before scRNA‐seq library construction using 10× Genomics Chromium technology. 12,819 cells were sequenced with an average depth of over 27,000 reads per cell. We identified a median of 485 genes per cell and 16 cell clusters, including NECs, neurons, pavement cells, endothelial cells and mitochondrion-rich cells. The identity of NECs was confirmed by expression of slc18a2, encoding the vesicular monoamine transporter, Vmat2. Highly differentially-expressed genes in NECs included tph1a, encoding tryptophan hydroxylase, sv2 (synaptic vesicle protein), and proteins implicated in O2 sensing (ndufa4l2a, cox8al and epas1a). In addition, NECs and neurons expressed genes encoding transmembrane receptors for serotonergic, cholinergic or dopaminergic neurotransmission. Differential expression analysis showed a clear shift in the transcriptome of NECs following 14 days of acclimation to hypoxia. NECs in the hypoxia group showed high expression of genes involved in cell cycle control and proliferation. The present article provides a complete cell atlas for the zebrafish gill and serves as a platform for future studies investigating the molecular biology and physiology of this organ.