bluuebunny/crossref_metadata_2025_split huggingface dataset:
Magnitude of venous or capillary blood-derived SARS-CoV-2-specific T cell response determines COVID-19 immunity
Authors: Scurr Martin J. , Lippiatt George , Capitani Lorenzo , Bentley Kirsten , Lauder Sarah N. , Smart Kathryn , Somerville Michelle S. , Rees Tara , Stanton Richard J. , Gallimore Awen , Hindley James P. , Godkin Andrew 
Published: September 2022

AbstractT cells specific for SARS-CoV-2 are thought to protect against infection and development of COVID-19, but direct evidence for this is lacking. Here, we associated whole-blood-based measurement of SARS-CoV-2-specific interferon-γ-positive T cell responses with positive COVID-19 diagnostic (PCR and/or lateral flow) test results up to 6 months post-blood sampling. Amongst 148 participants donating venous blood samples, SARS-CoV-2-specific T cell response magnitude is significantly greater in those who remain protected versus those who become infected (P < 0.0001); relatively low magnitude T cell response results in a 43.2% risk of infection, whereas high magnitude reduces this risk to 5.4%. These findings are recapitulated in a further 299 participants testing a scalable capillary blood-based assay that could facilitate the acquisition of population-scale T cell immunity data (14.9% and 4.4%, respectively). Hence, measurement of SARS-CoV-2-specific T cells can prognosticate infection risk and should be assessed when monitoring individual and population immunity status.
Transcriptomic architecture of nuclei in the marmoset CNS
Authors: Lin Jing-Ping , Kelly Hannah M. , Song Yeajin , Kawaguchi Riki , Geschwind Daniel H. , Jacobson Steven , Reich Daniel S. 
Published: September 2022

AbstractTo understand the cellular composition and region-specific specialization of white matter — a disease-relevant, glia-rich tissue highly expanded in primates relative to rodents — we profiled transcriptomes of ~500,000 nuclei from 19 tissue types of the central nervous system of healthy common marmoset and mapped 87 subclusters spatially onto a 3D MRI atlas. We performed cross-species comparison, explored regulatory pathways, modeled regional intercellular communication, and surveyed cellular determinants of neurological disorders. Here, we analyze this resource and find strong spatial segregation of microglia, oligodendrocyte progenitor cells, and astrocytes. White matter glia are diverse, enriched with genes involved in stimulus-response and biomolecule modification, and predicted to interact with other resident cells more extensively than their gray matter counterparts. Conversely, gray matter glia preserve the expression of neural tube patterning genes into adulthood and share six transcription factors that restrict transcriptome complexity. A companion Callithrix jacchus Primate Cell Atlas (CjPCA) is available through https://cjpca.ninds.nih.gov.
Enantioselective nickel-catalyzed dicarbofunctionalization of 3,3,3-trifluoropropene
Authors: Li Yun-Ze , Rao Na , An Lun , Wan Xiao-Long , Zhang Yanxia , Zhang Xingang 
Published: September 2022

AbstractDespite paramount applications of chiral trifluoromethylated compounds in medicinal chemistry and materials science, limited strategies have been developed for catalytic asymmetric synthesis of such valuable fluorinated structures. Here, we report a nickel catalyzed enantioselective dicarbofunctionalization of inexpensive industrial chemical 3,3,3-trifluoropropene (TFP) with readily available tertiary alkyl and aryl iodides. The reaction overcomes the β-F elimination side reaction of TFP, and proceeds efficiently under mild reaction conditions. The protocol possesses advantages, such as synthetic convenience, high enantioselectivity, and excellent functional group tolerance, providing rapid and straightforward access to chiral trifluoromethylated compounds of medicinal interest.
Sustainable production of hydrogen with high purity from methanol and water at low temperatures
Authors: Zhang Sai , Liu Yuxuan , Zhang Mingkai , Ma Yuanyuan , Hu Jun , Qu Yongquan 
Published: September 2022

AbstractCarbon neutrality initiative has stimulated the development of the sustainable methodologies for hydrogen generation and safe storage. Aqueous-phase reforming methanol and H2O (APRM) has attracted the particular interests for their high gravimetric density and easy availability. Thus, to efficiently release hydrogen and significantly suppress CO generation at low temperatures without any additives is the sustainable pursuit of APRM. Herein, we demonstrate that the dual-active sites of Pt single-atoms and frustrated Lewis pairs (FLPs) on porous nanorods of CeO2 enable the efficient additive-free H2 generation with a low CO (0.027%) through APRM at 120 °C. Mechanism investigations illustrate that the Pt single-atoms and Lewis acidic sites cooperatively promote the activation of methanol. With the help of a spontaneous water dissociation on FLPs, Pt single-atoms exhibit a significantly improved reforming of *CO to promote H2 production and suppress CO generation. This finding provides a promising path towards the flexible hydrogen utilizations.
Fuel exploitation and environmental degradation at the Iron Age copper industry of the Timna Valley, southern Israel
Authors: Cavanagh Mark , Ben-Yosef Erez , Langgut Dafna 
Published: September 2022

AbstractEconomic and industrial progress frequently comes at the expense of environmental sustainability. For the early Iron Age (~ eleventh to ninth centuries BCE) smelters of the ancient copper industry of the Timna Valley, southern Israel, where today the hyper-arid Aravah Desert provides sparse vegetation, woody fuel for metallurgical furnaces constituted the greatest limiting factor for continued operations. This study presents the first investigation into the fuel sources relied upon by this industry during its most intensive period, as reflected by hundreds of charcoal samples collected from two well-stratified and chronologically anchored accumulations of industrial waste. The two sites demonstrate similar results: a heavy reliance on the local vegetation, particularlyRetama raetam(white broom) and the ecologically significantAcaciaspp. (acacia thorn trees), two high-calorific and high-burning taxa best suited for such purposes. It was also observed that over the course of the industry, the search for fuel expanded, as evidenced by the later appearance of taxa unsuited for the prevailing regional conditions, hinting at the detrimental toll the industry took on the local ecosystem. Altogether, it is suggested that the lucrative copper industry ended due to limits in the availability of fuel, caused by anthropogenic hastening of desertification and environmental degradation.
Differential privacy medical data publishing method based on attribute correlation
Authors: Zhang Siqi , Li Xiaohui 
Published: September 2022

AbstractThe advent of the era of big data promotes the further development of medicine, and data release is an important step in it. The existing medical data release methods mostly use the k-anonymity model as the basis for data protection. With the advancement of technology, anonymous models are progressively less resistant to consistency attacks and background knowledge attacks. In order to better protect the private information of patients, this paper makes two major contributions: (1) The method of calculating the correlation between attributes is used to ensure the validity of the data after the data is released; (2) On the basis of the previous step, combined with the difference privacy-preserving model and tree model, this paper proposes an attribute association-based differential privacy classification tree data publishing method (ACDP-Tree). In this paper, simulation experiments are carried out on real medical data sets. The experimental results show that the algorithm ensures the validity and availability of the data to a certain extent while ensuring that the patient's privacy is not leaked.
Significantly different roles of economic affluence in sex-specific obesity prevalence rates: understanding more modifications within female body weight management
Authors: You Wenpeng , Henneberg Maciej 
Published: September 2022

AbstractSocioeconomic status has been associated with obesity prevalence increase in both males and females worldwide. We examined the magnitude of the difference between the two relationships and explored the independence of both relationships. Country specific data on gross domestic product (GDP) per capita, sex-specific obesity prevalence rates, urbanisation, total calories availability and level of obesity, genetic background accumulation (measured by the Biological State Index, Ibs) were obtained for 191 countries. Curvilinear regressions, bivariate and partial correlations, linear mixed models and multivariate linear regression analyses were used to examine the relationship between GDP and obesity prevalence rates in males and females respectively. Fisher’s r-to-z transformation, F-test and R2increment in multivariate regression were used to compare results for males and females. GDP significantly correlated with sex-specific obesity prevalence rates, but significantly more strongly with male obesity prevalence in bivariate correlation analyses. These relationships remained independent of calories availability, Ibsand urbanization in partial correlation model. Stepwise multiple regression identified that GDP was a significant predictor of obesity prevalence in both sexes. Multivariate stepwise regression showed that, when adding GDP as an obesity prevalence predictor, the absolute increment of R2in male fit model (0.046) was almost four (4) times greater than the absolute increment in female model fit (0.012). The Stepwise analyses also revealed that 68.0% of male but only 37.4% of female obesity prevalence rates were explained by the total contributing effects of GDP, Ibs, urbanization and calories availability. In both Pearson’s r and nonparametric analyses, GDP contributes significantly more to male obesity than to female obesity in both developed and developing countries. GDP also determined the significant regional variation in male, but not female obesity prevalence. GDP may contribute to obesity prevalence significantly more in males than in females regardless of the confounding effects of Ibs, urbanization and calories. This may suggest that aetiologies for female obesity are much more complex than for males and more confounders should be included in the future studies when data are available.
A T-CNN time series classification method based on Gram matrix
Authors: Wang Junlu , Li Su , Ji Wanting , Jiang Tian , Song Baoyan 
Published: September 2022

AbstractTime series classification is a basic task in the field of streaming data event analysis and data mining. The existing time series classification methods have the problems of low classification accuracy and low efficiency. To solve these problems, this paper proposes a T-CNN time series classification method based on a Gram matrix. Specifically, we perform wavelet threshold denoising on time series to filter normal curve noise, and propose a lossless transformation method based on the Gram matrix, which converts the time series to the time domain image and retains all the information of events. Then, we propose an improved CNN time series classification method, which introduces the Toeplitz convolution kernel matrix into convolution layer calculation. Finally, we introduce a Triplet network to calculate the similarity between similar events and different classes of events, and optimize the squared loss function of CNN. The proposed T-CNN model can accelerate the convergence rate of gradient descent and improve classification accuracy. Experimental results show that, compared with the existing methods, our T-CNN time series classification method has great advantages in efficiency and accuracy.
Development of artificial intelligence for automated measurement of cervical lordosis on lateral radiographs
Authors: Fujimori Takahito , Suzuki Yuki , Takenaka Shota , Kita Kosuke , Kanie Yuya , Kaito Takashi , Ukon Yuichiro , Watabe Tadashi , Nakajima Nozomu , Kido Shoji , Okada Seiji 
Published: September 2022

AbstractCervical sagittal alignment is an essential parameter for the evaluation of spine disorders. Manual measurement is time-consuming and burdensome to measurers. Artificial intelligence (AI) in the form of convolutional neural networks has begun to be used to measure x-rays. This study aimed to develop AI for automated measurement of lordosis on lateral cervical x-rays. We included 4546 cervical x-rays from 1674 patients. For all x-rays, the caudal endplates of C2 and C7 were labeled based on consensus among well-experienced spine surgeons, the data for which were used as ground truth. This ground truth was split into training data and test data, and the AI model learned the training data. The absolute error of the AI measurements relative to the ground truth for 4546 x-rays was determined by fivefold cross-validation. Additionally, the absolute error of AI measurements was compared with the error of other 2 surgeons’ measurements on 415 radiographs of 168 randomly selected patients. In fivefold cross-validation, the absolute error of the AI model was 3.3° in the average and 2.2° in the median. For comparison of other surgeons, the mean absolute error for measurement of 168 patients was 3.1° ± 3.4° for the AI model, 3.9° ± 3.4° for Surgeon 1, and 3.8° ± 4.7° for Surgeon 2. The AI model had a significantly smaller error than Surgeon 1 and Surgeon 2 (P = 0.002 and 0.036). This algorithm is available at (https://ykszk.github.io/c2c7demo/). The AI model measured cervical spine alignment with better accuracy than surgeons. AI can assist in routine medical care and can be helpful in research that measures large numbers of images. However, because of the large errors in rare cases such as highly deformed ones, AI may, in principle, be limited to assisting humans.
Zinc detection in oil-polluted marine environment by stripping voltammetry with mercury-free nanoporous gold electrode
Authors: Clochard M.-C. , Oral O. , Wade T. L. , Cavani O. , Castellino M. , Ligiero L. Medina , Elan T. 
Published: September 2022

AbstractDetection of Zn(II) in oil-polluted seawater via square-wave anodic stripping voltammetry (SW-ASV) utilizing thin gold electrodes sputtered onto nanoporous poly(acrylic acid)-grafted-poly(vinylidene difluoride) (PAA-g-PVDF) membrane is herein reported. Prior to SW-ASV, PAA grafted nanopores demonstrated to efficiently trap Zn(II) ions at open circuit. This passive adsorption followed a Langmuir law. An affinity constant of 1.41 L $$\upmu $$
μ
mol$$^{-1}$$

-
1

and a maximum Zn(II) adsorbed mass q$$_{max}$$

max

of 1.21 $$\upmu $$
μ
mol g$$^{-1}$$

-
1

were found. Applied SW-ASV protocol implied an accumulation step (− 1.2 V for 120 s) followed by a stripping step (− 1.2 to 1 V; 25 Hz; step: 4 mV; amplitude: 25 mV; acetate buffer (pH 5.5)). It revealed a Zn redox potential at − 0.8 V (Ag/AgCl pseudo-reference). Multiple measurements in synthetic waters close to the composition of production waters exhibited a decreasing precision with the number of readings R (1.65$$\%$$
%
(R = 2) and 6.56$$\%$$
%
(R = 3)). These membrane-electrodes should be used as disposable. The intra-batch mean precision was 14$$\%$$
%
(n = 3) while inter-batches precision was 20$$\%$$
%
(n = 15). Linear and linear-log calibrations allow exploitation of Zn(II) concentrations ranging from 10 to 500 $$\upmu $$
μ
g L$$^{-1}$$

-
1

and 100 to 1000 $$\upmu $$
μ
g L$$^{-1}$$

-
1

respectively. The LOD was 4.2 $$\upmu $$
μ
g L$$^{-1}$$

-
1

(3S/N). Thanks to obtained calibration, a detected Zn(II) content of 1 ppm in a raw production water from North Sea oil platform was determined.
ZIKV-envelope proteins induce specific humoral and cellular immunity in distinct mice strains
Authors: Lunardelli Victória Alves Santos , de Souza Apostolico Juliana , Souza Higo Fernando Santos , Coirada Fernanda Caroline , Martinho Jéssica Amaral , Astray Renato Mancini , Boscardin Silvia Beatriz , Rosa Daniela Santoro 
Published: September 2022

AbstractRecent outbreaks of Zika virus (ZIKV) infection have highlighted the need for a better understanding of ZIKV-specific immune responses. The ZIKV envelope glycoprotein (EZIKV) is the most abundant protein on the virus surface and it is the main target of the protective immune response. EZIKV protein contains the central domain (EDI), a dimerization domain containing the fusion peptide (EDII), and a domain that binds to the cell surface receptor (EDIII). In this study, we performed a systematic comparison of the specific immune response induced by different EZIKV recombinant proteins (EZIKV, EDI/IIZIKV or EDIIIZIKV) in two mice strains. Immunization induced high titers of E-specific antibodies which recognized ZIKV-infected cells and neutralized the virus. Furthermore, immunization with EZIKV, EDI/IIZIKV and EDIIIZIKV proteins induced specific IFNγ-producing cells and polyfunctional CD4+ and CD8+ T cells. Finally, we identified 4 peptides present in the envelope protein (E1–20, E51–70, E351–370 and E361–380), capable of inducing a cellular immune response to the H-2Kd and H-2Kb haplotypes. In summary, our work provides a detailed assessment of the immune responses induced after immunization with different regions of the ZIKV envelope protein.
Bottom-up plasma-enhanced atomic layer deposition of SiO2 by utilizing growth inhibition using NH3 plasma pre-treatment for seamless gap-fill process
Authors: Choi Yoenju , Kim Taehoon , Lee Hangyul , Park Jusung , Park Juhwan , Ryu Dongho , Jeon Woojin 
Published: September 2022

AbstractThe design-rule shrinkage in semiconductor devices is a challenge at every step of the integration process. In the gap-fill process for isolation, the seam and void formation cannot be suppressed by using a deposition process, which even has excellent step coverage. To achieve seamless gap fill in the high-aspect-ratio structure, which has a non-ideal etch profile such as a negative slope, the deposition process should be able to realize the “bottom-up growth” behavior. In this work, the bottom-up growth of a SiO2 plasma-enhanced atomic layer deposition (PE-ALD) process in a trench structure was investigated by using a growth inhibition process employing plasma treatment. N2 and NH3 plasma pre-treatments were employed to suppress the growth of the SiO2 PE-ALD process without any contamination, and the inhibition mechanism was investigated by performing surface chemistry analyses using X-ray photoelectron spectroscopy. Furthermore, the gap-fill characteristics of the SiO2 PE-ALD process were examined, depending on the process conditions of NH3 plasma pre-treatment, by performing cross-sectional field emission scanning electron microscopy measurements. Finally, a seamless gap-fill process in a high-aspect-ratio trench pattern was achieved by the bottom-up growth behavior of SiO2 PE-ALD using NH3 plasma pre-treatment.
Diversity of endophytic bacterial microbiota in grapevine shoot xylems varies depending on wine grape-growing region, cultivar, and shoot growth stage
Authors: Hamaoka Kazuhiro , Aoki Yoshinao , Takahashi Sayuri , Enoki Shinichi , Yamamoto Kosuke , Tanaka Keisuke , Suzuki Shunji 
Published: September 2022

AbstractNext-generation sequencing technology may clarify microbiota that are as yet poorly understood in the soil, the rhizosphere, and the phyllosphere of vineyards. To provide new information on the interaction between grapevine and microorganisms, we focused on the endophytic microbiota in grapevine. We performed endophytic microbiome analysis of the shoot xylems of four cultivars,Vitis viniferacvs. Chardonnay, Pinot Noir, Cabernet Sauvignon, andVitissp. cv. Koshu, grown in eleven vineyards in Japan. The number of endophytic fungal species was small in the grapevine shoot xylems and could not be analyzed further, whereas a total of 7,019,600 amplicon sequences (46,642–285,003 per shoot xylem) and 1305 bacterial operational taxonomic units were obtained by analysis of the V3–V4 region of the bacterial 16S rRNA gene. Gammaproteobacteria was predominant in the shoot xylems at the shoot elongation stage irrespective of the cultivar, whereas Alphaproteobacteria and Oxyphotobacteria were predominant at véraison. Actinobacteria, Bacteroidia, Bacilli, and Clostridia were also detected in the shoot xylems. The endophytic bacterial microbiota in Koshu and Pinot Noir shoot xylems were similar irrespective of the grapevine-growing region. In contrast, the endophytic bacterial microbiota in Chardonnay and Cabernet Sauvignon showed diversity and complexity among grapevine-growing regions. Alpha diversity analysis revealed that Koshu shoot xylems had a higher diversity of endophytic bacterial microbiota than Pinot Noir, Chardonnay, and Cabernet Sauvignon shoot xylems, and that grapevine shoot xylems at the shoot elongation stage had a higher diversity of endophytic bacterial microbiota than those at véraison. Principal coordinate analysis (PCoA) demonstrated that the profiles of the endophytic bacterial microbiota in grapevine shoot xylems at véraison were relatively uniform compared with those at the shoot elongation stage. Multidimensional scaling analysis showed that the plots of all cultivars were generally apart from each other at the shoot elongation stage and then became close to each other at véraison. The plots of all grapevine-growing regions cultivating Koshu were close to each other, whereas those of grapevine-growing regions cultivating Chardonnay and Cabernet Sauvignon were apart from each other. The findings of this study suggest that the endophytic bacterial microbiota in grapevine shoot xylems varied depending on the cultivar and the grapevine-growing region even for the same cultivars, and that the microbiota fluctuated depending on the shoot growth stage.
The impact of environmental factors on the evolution of brain size in carnivorans
Authors: Michaud M. , Toussaint S. L. D. , Gilissen E. 
Published: September 2022

AbstractThe reasons why some animals have developed larger brains has long been a subject of debate. Yet, it remains unclear which selective pressures may favour the encephalization and how it may act during evolution at different taxonomic scales. Here we studied the patterns and tempo of brain evolution within the order Carnivora and present large-scale comparative analysis of the effect of ecological, environmental, social, and physiological variables on relative brain size in a sample of 174 extant carnivoran species. We found a complex pattern of brain size change between carnivoran families with differences in both the rate and diversity of encephalization. Our findings suggest that during carnivorans’ evolution, a trade-off have occurred between the cognitive advantages of acquiring a relatively large brain allowing to adapt to specific environments, and the metabolic costs of the brain which may constitute a disadvantage when facing the need to colonize new environments.