bluuebunny/crossref_metadata_2025_split huggingface dataset:
Continuous observations of the surface energy budget and meteorology over the Arctic sea ice during MOSAiC
Authors: Cox Christopher J. , Gallagher Michael R. , Shupe Matthew D. , Persson P. Ola G. , Solomon Amy , Fairall Christopher W. , Ayers Thomas , Blomquist Byron , Brooks Ian M. , Costa Dave , Grachev Andrey , Gottas Daniel , Hutchings Jennifer K. , Kutchenreiter Mark , Leach Jesse , Morris Sara M. , Morris Victor , Osborn Jackson , Pezoa Sergio , Preußer Andreas , Riihimaki Laura D. , Uttal Taneil 
Published: August 2023

AbstractThe Multidisciplinary drifting Observatory for the Study of Arctic Climate (MOSAiC) was a yearlong expedition supported by the icebreaker R/V Polarstern, following the Transpolar Drift from October 2019 to October 2020. The campaign documented an annual cycle of physical, biological, and chemical processes impacting the atmosphere-ice-ocean system. Of central importance were measurements of the thermodynamic and dynamic evolution of the sea ice. A multi-agency international team led by the University of Colorado/CIRES and NOAA-PSL observed meteorology and surface-atmosphere energy exchanges, including radiation; turbulent momentum flux; turbulent latent and sensible heat flux; and snow conductive flux. There were four stations on the ice, a 10 m micrometeorological tower paired with a 23/30 m mast and radiation station and three autonomous Atmospheric Surface Flux Stations. Collectively, the four stations acquired ~928 days of data. This manuscript documents the acquisition and post-processing of those measurements and provides a guide for researchers to access and use the data products.
Proteome changes of fibroblasts and endothelial cells upon incubation with human cytomegalovirus subviral Dense Bodies
Authors: Penner Inessa , Dejung Mario , Freiwald Anja , Butter Falk , Chen Jia-Xuan , Plachter Bodo 
Published: August 2023

AbstractHuman cytomegalovirus (HCMV) is a pathogen of high medical relevance. Subviral Dense Bodies (DB) were developed as a vaccine candidate to ameliorate the severe consequences of HCMV infection. Development of such a candidate vaccine for human application requires detailed knowledge of its interaction with the host. A comprehensive mass spectrometry (MS)- based analysis was performed regarding the changes in the proteome of cell culture cells, exposed to DB.
A new approach for evaluating continuous and discontinuous pipeline deformation induced by soil tunnel excavation
Authors: Yang Tao , Deng Bo , Yang Minghui , Fu Daxi 
Published: August 2023

AbstractThe deformation of the overlying pipeline caused by the soil tunnel excavation cannot be ignored in the case of the small spacing between the pipeline and the tunnel. Based on the rigid bar method, the pipeline-soil interaction model was established, with the simply supported beam as the basic system, and the loads acting on the pipeline by the soil are considered to be linearly distributed. Calculation methods for continuous and discontinuous pipeline deformations were established. The results calculated by the proposed method agree well with the experimental data of centrifuge tests and field data. Parametric study on the effect of the volume loss (η = 1%, 2%,3 %), rotational stiffness (β0 = 4.47 × 106N⋅m/rad, 4.47 × 108N⋅m/rad, 4.47 × 1010N⋅m/rad), ratio of pipeline section length to inflection point of soil settlement curve (L/is = 0.5, 1.0, 1.5, 2.0) and soil elastic modulus (E = 10 MPa, 30 MPa, 50 MPa) on the deflection and joint rotation angle of the discontinuous pipeline were carried out. Results show that: (1) the maximum pipeline deflection and the maximum rotation angle of the joint increase as η increases and decrease as β0 increases; (2) in the "odd" case, the maximum pipeline deflection and the maximum rotation angle of the joint first increase and then decrease as L/is increases, reaching a peak at L/is = 1.5, while in the "even" case, the maximum pipeline deflection decreases as L/is increases and the maximum rotation angle of the joint first increases and then decreases as L/is increases; (3) in the "odd" case, the maximum pipeline deflection and the maximum angle of rotation of the joint decrease as E increases, while the opposite trend is observed in the "even" case. Additionally, the maximum pipeline deflection and the maximum rotation angle of the joint are always greater in the "odd" case than that in the "even" case.
The relevance of NMDA receptor antibody-specific index for diagnosis and prognosis in patients with anti-NMDA receptor encephalitis
Authors: Hümmert Martin W. , Jendretzky Konstantin F. , Fricke Karin , Gingele Marina , Ratuszny Dominica , Möhn Nora , Trebst Corinna , Skripuletz Thomas , Gingele Stefan , Sühs Kurt-Wolfram 
Published: August 2023

AbstractThe clinical implications of the presence of anti-N-methyl-D-aspartate receptor (NMDAR)-specific intrathecal immunoglobulin G synthesis and whether it determines the diagnosis of anti-NMDAR encephalitis have not been thoroughly investigated yet. Thus, the aim of this study was to investigate whether the detection of intrathecal anti-NMDAR-specific IgG synthesis contributes to the diagnostic confirmation of anti-NMDAR encephalitis, to disease severity, and to prognosis in patients with positive serum anti-NMDAR-IgG. In this study, patients with detectable anti-NMDAR IgG in serum and/or cerebrospinal fluid (CSF) were included and separated into two groups that either met the 2016 criteria by Graus et al. of definite anti-NMDAR encephalitis (n = 27) or did not (n = 15). In a total, of 80 paired CSF/serum samples, antibody titers were titrated manually and end-point titer levels were carefully determined in a blinded manner to the subgroup attribution. The disease course was assessed via the modified Rankin Scale (mRS) and prognosis was estimated by the anti-NMDAR Encephalitis One-Year Functional Status (NEOS) score. With respect to whether the diagnostic Graus criteria for definite anti-NMDAR encephalitis were fulfilled, a significantly unequal distribution of intrathecal anti-NMDAR antibody-specific synthesis could be shown with a high negative predictive value in case of a negative anti-NMDAR antibody-specific index (NMDAR AI, p = .008. OR = 23.9, sensitivity = 1.0, specificity = 0.4, negative predictive value = 1). A weak correlation was found between the CSF antibody titer and mRS value at the time of sample collection (rs = .37, p = .008, 95% CI [.09, .59]). During the disease course a higher delta-mRS value formed of the mRS at initial presentation minus that at the last recorded presentation correlated with a higher NMDAR AI at first lumbar puncture (rs = − .56, p = .017, 95% CI [− .83, − .11]). No association with the prognostic NEOS score was found. In conclusion, a negative antibody-specific index for anti-NMDAR IgG antibodies has a highly negative predictive value for the diagnosis of anti-NMDAR encephalitis. Yet, a positive NMDAR AI alone does not allow the diagnosis of anti-NMDAR encephalitis.
Development of a machine learning-based prediction model for sepsis-associated delirium in the intensive care unit
Authors: Zhang Yang , Hu Juanjuan , Hua Tianfeng , Zhang Jin , Zhang Zhongheng , Yang Min 
Published: August 2023

AbstractSeptic patients in the intensive care unit (ICU) often develop sepsis-associated delirium (SAD), which is strongly associated with poor prognosis. The aim of this study is to develop a machine learning-based model for the early prediction of SAD. Patient data were extracted from the Medical Information Mart for Intensive Care IV (MIMIC-IV) database and the eICU Collaborative Research Database (eICU-CRD). The MIMIC-IV data were divided into a training set and an internal validation set, while the eICU-CRD data served as an external validation set. Feature variables were selected using least absolute shrinkage and selection operator regression, and prediction models were built using logistic regression, support vector machines, decision trees, random forests, extreme gradient boosting (XGBoost), k-nearest neighbors and naive Bayes methods. The performance of the models was evaluated in the validation set. The model was also applied to a group of patients who were not assessed or could not be assessed for delirium. The MIMIC-IV and eICU-CRD databases included 14,620 and 1723 patients, respectively, with a median time to diagnosis of SAD of 24 and 30 h. Compared with Non-SAD patients, SAD patients had higher 28-days ICU mortality rates and longer ICU stays. Among the models compared, the XGBoost model had the best performance and was selected as the final model (internal validation area under the receiver operating characteristic curves (AUROC) = 0.793, external validation AUROC = 0.701). The XGBoost model outperformed other models in predicting SAD. The establishment of this predictive model allows for earlier prediction of SAD compared to traditional delirium assessments and is applicable to patients who are difficult to assess with traditional methods.
Artificial neural network approach for prediction of AuNPs biosynthesis by Streptomyces flavolimosus, characterization, antitumor potency in-vitro and in-vivo against Ehrlich ascites carcinoma
Authors: El-Naggar Noura El-Ahmady , Rabei Nashwa H. , Elmansy Mohamed F. , Elmessiry Omar T. , El-Sherbeny Mostafa K. , El-Saidy Mohanad E. , Sarhan Mohamed T. , Helal Manar G. 
Published: August 2023

AbstractGold nanoparticles (AuNPs) have emerged as promising and versatile nanoparticles for cancer therapy and are widely used in drug and gene delivery, biomedical imaging, diagnosis, and biosensors. The current study describes a biological-based strategy for AuNPs biosynthesis using the cell-free supernatant of Streptomyces flavolimosus. The biosynthesized AuNPs have an absorption peak at 530–535 nm. The TEM images indicate that AuNPs were spherical and ranged in size from 4 to 20 nm. The surface capping molecules of AuNPs are negatively charged, having a Zeta potential of − 10.9 mV. FTIR analysis revealed that the AuNPs surface composition contains a variety of functional groups as –OH, C–H, N–, C=O, NH3+, amine hydrochloride, amide group of proteins, C–C and C–N. The bioprocess variables affecting AuNPs biosynthesis were optimized by using the central composite design (CCD) in order to maximize the AuNPs biosynthesis. The maximum yield of AuNPs (866.29 µg AuNPs/mL) was obtained using temperature (35 °C), incubation period (4 days), HAuCl4 concentration (1000 µg/mL) and initial pH level 6. Comparison was made between the fitness of CCD versus Artificial neural network (ANN) approach based on their prediction and the corresponding experimental results. AuNPs biosynthesis values predicted by ANN exhibit a more reasonable agreement with the experimental result. The anticancer activities of AuNPs were assessed under both in vitro and in vivo conditions. The results revealed a significant inhibitory effect on the proliferation of the MCF-7 and Hela carcinoma cell lines treated with AuNPs with IC50 value of 13.4 ± 0.44 μg/mL and 13.8 ± 0.45 μg/mL for MCF-7 and Hela cells; respectively. Further, AuNPs showed potential inhibitory effect against tumor growth in tumor-bearing mice models. AuNPs significantly reduced the tumor volume, tumor weight, and decreased number of viable tumor cells in EAC bearing mice.
Integrated single-cell and bulk RNA sequencing analysis identifies a prognostic signature related to ferroptosis dependence in colorectal cancer
Authors: Xu Xiaochen , Zhang Xinwen , Lin Qiumei , Qin Yuling , Liu Yihao , Tang Weizhong 
Published: August 2023

AbstractFerroptosis is an iron-dependent form of cell death induced by lipid oxidation with an essential role in diseases, including cancer. Since prognostic value of ferroptosis-dependent related genes (FDRGs) in colorectal cancer (CRC) remains unclear, we explored the significance of FDRGs in CRC through comprehensive single-cell analysis. We downloaded the GSE161277 dataset for single-cell analyses and calculated the ferroptosis-dependent gene score (FerrScore) for each cell type. According to each cell type-specific median FerrScore, we categorized the cells into low- and high-ferroptosis groups. By analyzing differentially-expressed genes across the two groups, we identified FDRGs. We further screened these prognosis-related genes used to develop a prognostic signature and calculated its correlation with immune infiltration. We also compared immune checkpoint gene efficacy among different risk groups, and qRT-PCR was performed in colorectal normal and cancer cell lines to explore whether the signature genes could be used as clinical prognostic indicators. In total, 523 FDRGs were identified. A prognostic signature including five signature genes was constructed, and patients were divided into two risk groups. The high-risk group had poor survival rates and displayed high levels of immune infiltration. Our newly developed ferroptosis-based prognostic signature possessed a high predictive ability for CRC.
Antibodies against native proteins of Mycobacterium tuberculosis can detect pulmonary tuberculosis patients
Authors: Dewi Desak Nyoman Surya Suameitria , Mertaniasih Ni Made , Soedarsono  , Hagino Kimika , Yamazaki Tomoya , Ozeki Yuriko , Artama Wayan Tunas , Kobayashi Haruka , Inouchi Erina , Yoshida Yutaka , Ishikawa Satoshi , Shaban Amina Kaboso , Tateishi Yoshitaka , Nishiyama Akihito , Ato Manabu , Matsumoto Sohkichi 
Published: August 2023

AbstractAccurate point-of-care testing (POCT) is critical for managing tuberculosis (TB). However, current antibody-based diagnosis shows low specificity and sensitivity. To find proper antigen candidates for TB diagnosis by antibodies, we assessed IgGs responsiveness to Mycobacterium tuberculosis proteins in pulmonary TB (PTB) patients. We employed major secreted proteins, such as Rv1860, Ag85C, PstS1, Rv2878c, Ag85B, and Rv1926c that were directly purified from M. tuberculosis. In the first screening, we found that IgG levels were significantly elevated in PTB patients only against Rv1860, PstS1, and Ag85B among tested antigens. However, recombinant PstS1 and Ag85B from Escherichia coli (E. coli) couldn’t distinguish PTB patients and healthy controls (HC). Recombinant Rv1860 was not checked due to its little expression. Then, the 59 confirmed PTB patients from Soetomo General Academic Hospital, Surabaya, Indonesia, and 102 HC were tested to Rv1860 and Ag85B only due to the low yield of the PstS1 from M. tuberculosis. The ROC analysis using native Ag85B and Rv1860 showed an acceptable area under curve for diagnosis, which is 0.812 (95% CI 0.734–0.890, p < 0.0001) and 0.821 (95% CI 0.752–0.890, p < 0.0001). This study indicates that taking consideration of native protein structure is key in developing TB’s POCT by antibody-based diagnosis.
Artificial intelligence inspired design of non-isothermal aging for γ–γ′ two-phase, Ni–Al alloys
Authors: Nandal Vickey , Dieb Sae , Bulgarevich Dmitry S. , Osada Toshio , Koyama Toshiyuki , Minamoto Satoshi , Demura Masahiko 
Published: August 2023

AbstractIn this paper, a state-of-the-art Artificial Intelligence (AI) technique is used for a precipitation hardening of Ni-based alloy to predict more flexible non-isothermal aging (NIA) and to examine the possible routes for the enhancement in strength that may be practically achieved. Additionally, AI is used to integrate with Materials Integration by Network Technology, which is a computational workflow utilized to model the microstructure evolution and evaluate the 0.2% proof stress for isothermal aging and NIA. As a result, it is possible to find enhanced 0.2% proof stress for NIA for a fixed time of 10 min compared to the isothermal aging benchmark. The entire search space for aging scheduling was ~ 3 billion. Out of 1620 NIA schedules, we succeeded in designing the 110 NIA schedules that outperformed the isothermal aging benchmark. Interestingly, it is found that early-stage high-temperature aging for a shorter time increases the γ′ precipitate size up to the critical size and later aging at lower temperature increases the γ′ fraction with no anomalous change in γ′ size. Therefore, employing this essence from AI, we designed an optimum aging route in which we attained an outperformed 0.2% proof stress to AI-designed NIA routes.
Compact localized states in magnonic Lieb lattices
Authors: Centała Grzegorz , Kłos Jarosław W. 
Published: August 2023

AbstractLieb lattice is one of the simplest bipartite lattices, where compact localized states (CLS) are observed. This type of localization is induced by the peculiar topology of the unit cell, where the modes are localized only on selected sublattices due to the destructive interference of partial waves. We demonstrate the possibility of magnonic Lieb lattice realization, where flat bands and CLS can be observed in the planar structure of sub-micron in-plane sizes. Using forward volume configuration, the Ga-doped YIG layer with cylindrical inclusions (without Ga content) arranged in a Lieb lattice with 250 nm period was investigated numerically (finite-element method). The structure was tailored to observe, for a lowest magnonic bands, the oscillatory and evanescent spin waves in inclusions and matrix, respectively. Such a design reproduces the Lieb lattice of nodes (inclusions) coupled to each other by the matrix with the CLS in flat bands.
Morphological and molecular-biological features of glioblastoma progression in tolerant and susceptible to hypoxia Wistar rats
Authors: Dzhalilova D. Sh. , Zolotova N. A. , Mkhitarov V. A. , Kosyreva A. M. , Tsvetkov I. S. , Khalansky A. S. , Alekseeva A. I. , Fatkhudinov T. H. , Makarova O. V. 
Published: August 2023

AbstractHypoxia is a major pathogenetic factor in many cancers. Individual resistance to suboptimal oxygen availability is subject to broad variation and its possible role in tumorigenesis remains underexplored. This study aimed at specific characterization of glioblastoma progression in male tolerant and susceptible to hypoxia Wistar rats. Hypoxia resistance was assessed by gasping time measurement in an 11,500 m altitude-equivalent hypobaric decompression chamber. Based on the outcome, the animals were assigned to three groups termed ‘tolerant to hypoxia’ (n = 13), ‘normal’, and ‘susceptible to hypoxia’ (n = 24). The ‘normal’ group was excluded from subsequent experiments. One month later, the animals underwent inoculation with rat glioblastoma 101.8 followed by monitoring of survival, body weight dynamics and neurological symptoms. The animals were sacrificed on post-inoculation days 11 (subgroup 1) and 15 (subgroup 2). Relative vessels number, necrosis areas and Ki-67 index were assessed microscopically; tumor volumes were determined by 3D reconstruction from histological images; serum levels of HIF-1α, IL-1β, and TNFα were determined by ELISA. None of the tolerant to hypoxia animals died of the disease during observation period,cf.85% survival on day 11 and 55% survival on day 15 in the susceptible group. On day 11, proliferative activity of the tumors in the tolerant animals was higher compared with the susceptible group. On day 15, proliferative activity, necrosis area and volume of the tumors in the tolerant to hypoxia animals were higher compared with the susceptible group. ELISA revealed no dynamics in TNFα levels, elevated levels of IL-1β in the susceptible animals on day 15 in comparison with day 11 and tolerant ones. Moreover, there were elevated levels of HIF-1α in the tolerant animals on day 15 in comparison with day 11. Thus, the proliferative activity of glioblastoma cells and the content of HIF-1α were higher in tolerant to hypoxia rats, but the mortality associated with the tumor process and IL-1β level in them were lower than in susceptible animals. Specific features of glioblastoma 101.8 progression in tolerant and susceptible to hypoxia rats, including survival, tumor growth rates and IL-1β level, can become the basis of new personalized approaches for cancer diseases treatment in accordance to individual hypoxia resistance.
Combination of epigallocatechin 3 gallate and curcumin improves d-galactose and normal-aging associated memory impairment in mice
Authors: Rahman Md. Ashrafur , Shuvo Arif Anzum , Apu Md. Mehedi Hasan , Bhakta Monisha Rani , Islam Farzana , Rahman Md. Atiqur , Islam Md. Rabiul , Reza Hasan Mahmud 
Published: August 2023

AbstractPreviously, we observed curcumin improves aging-associated memory impairment in d-galactose (D-gal) and normal-aged (NA) mice. Evidence showed that multiple agents can be used in managing aging-induced memory dysfunction, drawn by the contribution of several pathways. Curcumin and Epigallocatechin 3 gallate (EGCG) combination substantially reduced the oxidative stress that commonly mediates aging. This study examined the combined effect of EGCG and curcumin on memory improvement in two recognized models, D-gal and normal-aged (NA) mice. The co-administration of EGCG and curcumin significantly (p < 0.05) increased retention time detected by passive avoidance (PA) and freezing response determined in contextual fear conditioning (CFC) compared to the discrete administration of EGCG or curcumin. Biochemical studies revealed that the combination of EGCG and curcumin remarkably ameliorated the levels (p < 0.05) of glutathione, superoxide dismutase, catalase, advanced oxidation protein products, nitric oxide, and lipid peroxidation compared to the monotherapy of EGCG or curcumin in mice hippocampi. The behavioral and biochemical studies revealed that the combination of EGCG and curcumin showed better improvement in rescuing aging-associated memory disorders in mice. EGCG and curcumin combination could serve as a better choice in managing aging-related memory disorders.