bluuebunny/crossref_metadata_2025_split huggingface dataset:
Untargeted serum metabolic profiling of diabetes mellitus among Parkinson’s disease patients
Authors: Li Shiwen , Lin Yuyuan , Jones Dean , Walker Douglas I. , Duarte Folle Aline , Del Rosario Irish , Yu Yu , Zhang Keren , Keener Adrienne M. , Bronstein Jeff , Ritz Beate , Paul Kimberly C. 
Published: May 2024

AbstractType 2 diabetes mellitus (T2DM) is a common comorbidity among Parkinson’s disease (PD) patients. Yet, little is known about dysregulated pathways that are unique in PD patients with T2DM. We applied high-resolution metabolomic profiling in serum samples of 636 PD and 253 non-PD participants recruited from Central California. We conducted an initial discovery metabolome-wide association and pathway enrichment analysis. After adjusting for multiple testing, in positive (or negative) ion mode, 30 (25) metabolic features were associated with T2DM in both PD and non-PD participants, 162 (108) only in PD participants, and 32 (7) only in non-PD participants. Pathway enrichment analysis identified 17 enriched pathways associated with T2DM in both the PD and non-PD participants, 26 pathways only in PD participants, and 5 pathways only in non-PD participants. Several amino acid, nucleic acids, and fatty acid metabolisms were associated with T2DM only in the PD patient group suggesting a possible link between PD and T2DM.
Rhizobia–diatom symbiosis fixes missing nitrogen in the ocean
Authors: Tschitschko Bernhard , Esti Mertcan , Philippi Miriam , Kidane Abiel T. , Littmann Sten , Kitzinger Katharina , Speth Daan R. , Li Shengjie , Kraberg Alexandra , Tienken Daniela , Marchant Hannah K. , Kartal Boran , Milucka Jana , Mohr Wiebke , Kuypers Marcel M. M. 
Published: May 2024

AbstractNitrogen (N2) fixation in oligotrophic surface waters is the main source of new nitrogen to the ocean1 and has a key role in fuelling the biological carbon pump2. Oceanic N2 fixation has been attributed almost exclusively to cyanobacteria, even though genes encoding nitrogenase, the enzyme that fixes N2 into ammonia, are widespread among marine bacteria and archaea3–5. Little is known about these non-cyanobacterial N2 fixers, and direct proof that they can fix nitrogen in the ocean has so far been lacking. Here we report the discovery of a non-cyanobacterial N2-fixing symbiont, ‘Candidatus Tectiglobus diatomicola’, which provides its diatom host with fixed nitrogen in return for photosynthetic carbon. The N2-fixing symbiont belongs to the order Rhizobiales and its association with a unicellular diatom expands the known hosts for this order beyond the well-known N2-fixing rhizobia–legume symbioses on land6. Our results show that the rhizobia–diatom symbioses can contribute as much fixed nitrogen as can cyanobacterial N2 fixers in the tropical North Atlantic, and that they might be responsible for N2 fixation in the vast regions of the ocean in which cyanobacteria are too rare to account for the measured rates.
An electrochemical, and surface studies of synthesized Gemini ionic liquid as corrosion inhibitor for carbon steel in petroleum field
Authors: Selim Yousef A. , Abd-El-Raouf M. , Zakaria K. , Sayed Ahmed Z. , Moustafa Yasser M. , Ashmawy Ashraf M. 
Published: May 2024

AbstractIn this work, we study the efficiency ofN1,N3-dibenzyl-N1, N1,N3,N3-tetramethylpropane-1,3-diaminium chloride, as anticorrosion. This compound exhibits potential as a prospective remedy to stop the deterioration of carbon steel caused by corrosion in 1.0 M HCl. The synthesis of this compound is described in a comprehensive manner, and its composition is supported by a range of precise analytical approaches such as elemental analysis, and mass spectroscopy. Based on the findings of the investigation, the synthesized Gemini ionic liquid demonstrates a robust capacity to slow down the rate at which the metal corrodes. The Prepared compound was evaluation by electrochemical and morphology study. Our results revealed that elevating the inhibitor concentration led to an augmentation in inhibition effectiveness, reaching up to 94.8% at 200 ppm of the synthesized compound at 298 K. It is crucial to emphasize that the recently prepared Gemini ionic liquid is consistent with the Langmuir adsorption model and function as a mixed inhibitor, participating in the physio-chemisorption process of adsorption.
Exact solitary wave propagations for the stochastic Burgers’ equation under the influence of white noise and its comparison with computational scheme
Authors: Baber Muhammad Zafarullah , Mohammed Wael W. , Ahmed Nauman , Iqbal Muhammad Sajid 
Published: May 2024

AbstractIn this manuscript, the well-known stochastic Burgers’ equation in under investigation numerically and analytically. The stochastic Burgers’ equation plays an important role in the fields of applied mathematics such as fluid dynamics, gas dynamics, traffic flow, and nonlinear acoustics. This study is presented the existence, approximate, and exact stochastic solitary wave results. The existence of results is shown by the help of Schauder fixed point theorem. For the approximate results the proposed stochastic finite difference scheme is constructed. The analysis of the proposed scheme is analyzed by presented the consistency and stability of scheme. The consistency is checked under the mean square sense while the stability condition is gained by the help of Von-Neumann criteria. Meanwhile, the stochastic exact solutions are constructed by using the generalized exponential rational function method. These exact stochastic solutions are obtained in the form of hyperbolic, trigonometric and exponential functions. Mainly, the comparison of both numerical and exact solutions are analyzed via simulations. The unique physical problems are constructed from the newly constructed soliton solutions to compare the numerical results with exact solutions under the presence of randomness. The 3D and line plots are dispatched that are shown the similar behavior by choosing the different values of parameters. These results are the main innovation of this study under the noise effects.
Research on coupling optimization of carbon emissions and carbon leakage in international construction projects
Authors: Zhou Zhiwu , Wang Ying , Alcalá Julián , Yepes Víctor 
Published: May 2024

AbstractDue to the rapid economic development of globalization and the intensification of economic and trade exchanges, cross-international and regional carbon emissions have become increasingly severe. Governments worldwide establish laws and regulations to protect their countries' environmental impact. Therefore, selecting robustness evaluation models and metrics is an urgent research topic. This article proves the reliability and scientific of the assessment data through literature coupling evaluation, multidisciplinary coupling mathematical model and international engineering case analysis. The innovation of this project's research lies in the comprehensive analysis of the complex coupling effects of various discrete data and uncertainty indicators on the research model across international projects and how to model and evaluate interactive effects accurately. This article provides scientific measurement standards and data support for governments worldwide to formulate carbon tariffs and carbon emission policies. Case analysis data shows that the carbon emission ratio of exporting and importing countries is 0.577:100; the carbon trading quota ratio is 32.50:100.
Application of advanced causal analyses to identify processes governing secondary organic aerosols
Authors: Sinha S. , Sharma H. , Shrivastava M. 
Published: May 2024

AbstractUnderstanding how different physical and chemical atmospheric processes affect the formation of fine particles has been a persistent challenge. Inferring causal relations between the various measured features affecting the formation of secondary organic aerosol (SOA) particles is complicated since correlations between variables do not necessarily imply causality. Here, we apply a state-of-the-art information transfer measure coupled with the Koopman operator framework to infer causal relations between isoprene epoxydiol SOA (IEPOX-SOA) and different chemistry and meteorological variables derived from detailed regional model predictions over the Amazon rainforest. IEPOX-SOA represents one of the most complex SOA formation pathways and is formed by the interactions between natural biogenic isoprene emissions and anthropogenic emissions affecting sulfate, acidity and particle water. Since the regional model captures the known relations of IEPOX-SOA with different chemistry and meteorological features, their simulated time series implicitly include their causal relations. We show that our causal model successfully infers the known major causal relations between total particle phase 2-methyl tetrols (the dominant component of IEPOX-SOA over the Amazon) and input features. We provide the first proof of concept that the application of our causal model better identifies causal relations compared to correlation and random forest analyses performed over the same dataset. Our work has tremendous implications, as our methodology of causal discovery could be used to identify unknown processes and features affecting fine particles and atmospheric chemistry in the Earth’s atmosphere.
3SAT on an all-to-all-connected CMOS Ising solver chip
Authors: Cılasun Hüsrev , Zeng Ziqing , S Ramprasath , Kumar Abhimanyu , Lo Hao , Cho William , Moy William , Kim Chris H. , Karpuzcu Ulya R. , Sapatnekar Sachin S. 
Published: May 2024

AbstractThis work solves 3SAT, a classical NP-complete problem, on a CMOS-based Ising hardware chip with all-to-all connectivity. The paper addresses practical issues in going from algorithms to hardware. It considers several degrees of freedom in mapping the 3SAT problem to the chip—using multiple Ising formulations for 3SAT; exploring multiple strategies for decomposing large problems into subproblems that can be accommodated on the Ising chip; and executing a sequence of these subproblems on CMOS hardware to obtain the solution to the larger problem. These are evaluated within a software framework, and the results are used to identify the most promising formulations and decomposition techniques. These best approaches are then mapped to the all-to-all hardware, and the performance of 3SAT is evaluated on the chip. Experimental data shows that the deployed decomposition and mapping strategies impact SAT solution quality: without our methods, the CMOS hardware cannot achieve 3SAT solutions on SATLIB benchmarks. Under the assumption of some hardware improvements, our chip-based 3SAT solver demonstrates a remarkable 250$$\times$$
×
acceleration compared to Tabu search in dwave-hybrid on a CPU.
The prognostic significance and potential mechanism of DBF4 zinc finger in hepatocellular carcinoma
Authors: Wu Zhongkai , Zhang Lilong , Li Xinyi , Liu Li , Kuang Tianrui , Qiu Zhendong , Deng Wenhong , Wang Weixing 
Published: May 2024

AbstractDBF4 zinc finger (DBF4) is a critical component involved in DNA replication and cell proliferation. It acts as a positive regulator of the cell division cycle 7 kinase. In this study, our investigation encompassed the impact of DBF4 on hepatocellular carcinoma (HCC) progression and delved into the potential mechanisms. We utilized open-access databases like TCGA and GEO to analyze the association between DBF4 and 33 different tumor types. We also conducted immunohistochemistry experiments to validate the expression of DBF4 in HCC, STAD, COAD, READ, PAAD, and LGG. Furthermore, we employed lentiviral transduction to knockdown DBF4 in HLF and SMMC cells, as well as to overexpress DBF4 in Huh7 cells. Subsequently, we evaluated the impact of DBF4 on proliferation, migration, and invasion of hepatocellular carcinoma cells. RNA sequencing and KEGG pathway enrichment analysis were also conducted to identify potential pathways, which were further validated through WB experiments. Finally, pathway inhibitor was utilized in rescue experiments to confirm whether DBF4 exerts its effects on tumor cells via the implicated pathway. Our findings revealed that DBF4 exhibited significant expression levels in nearly all examined tumors, which were further substantiated by the results of immunohistochemistry analysis. High DBF4 expression was correlated with poor overall survival (OS), disease-specific survival (DSS), progression-free interval (PFI), disease-free interval (DFI), relapse-free interval (RFI) in majority of tumor types, particularly in patients with HCC. In vitro experiments demonstrated that inhibition of DBF4 impaired the proliferative, migratory, and invasive abilities of HCC cells, whereas overexpression of DBF4 promoted these phenotypes. Sequencing results indicated that DBF4 may induce these changes through the ERBB signaling pathway. Further experimental validation revealed that DBF4 activates the ERBB signaling pathway, leading to alterations in the JNK/STAT, MAPK, and PI3K/AKT signaling pathways, thereby impacting the proliferative, migratory, and invasive abilities of tumor cells. Lastly, treatment of Huh7 cells overexpressing DBF4 with the ERBB2 inhibitor dacomitinib demonstrated the ability of ERBB2 inhibition to reverse the promoting effect of DBF4 overexpression on the proliferative, migratory, and invasive abilities of HCC cells. DBF4 plays a pivotal oncogenic role in HCC by promoting the ERBB signaling pathway and activating its downstream PI3K/AKT, JNK/STAT3, and MAPK signaling pathways. DBF4 may serve as a prognostic biomarker for patients with HCC.
Benefits of tropical peatland rewetting for subsidence reduction and forest regrowth: results from a large-scale restoration trial
Authors: Hooijer A. , Vernimmen R. , Mulyadi D. , Triantomo V. , Hamdani  , Lampela M. , Agusti R. , Page S. E. , Doloksaribu J. , Setiawan I. , Suratmanto B. , Swarup S. 
Published: May 2024

AbstractDrainage and deforestation of tropical peat swamp forests (PSF) in Southeast Asia cause carbon emissions and biodiversity loss of global concern. Restoration efforts to mitigate these impacts usually involve peatland rewetting by blocking canals. However, there have been no studies to date of the optimal rewetting approach that will reduce carbon emission whilst also promoting PSF regeneration. Here we present results of a large-scale restoration trial in Sumatra (Indonesia), monitored for 7.5 years. Water levels in a former plantation were raised over an area of 4800 ha by constructing 257 compacted peat dams in canals. We find peat surface subsidence rates in the rewetted restoration area and adjoining PSF to be halved where water tables were raised from ~ − 0.6 m to ~ − 0.3 m, demonstrating the success of rewetting in reducing carbon emission. A total of 57 native PSF tree species were found to spontaneously grow in the most rewetted conditions and in high densities, indicating that forest regrowth is underway. Based on our findings we propose that an effective PSF restoration strategy should follow stepwise rewetting to achieve substantial carbon emission reduction alongside unassisted regrowth of PSF, thereby enabling the peat, forest and canal vegetation to establish a new nature-based ecosystem balance.
Noise-induced hearing loss alters potassium-chloride cotransporter KCC2 and GABA inhibition in the auditory centers
Authors: Parameshwarappa V. , Siponen M. I. , Watabe I. , Karkaba A. , Galazyuk A. , Noreña A. J. 
Published: May 2024

AbstractHomeostatic plasticity, the ability of neurons to maintain their averaged activity constant around a set point value, is thought to account for the central hyperactivity after hearing loss. Here, we investigated the putative role of GABAergic neurotransmission in this mechanism after a noise-induced hearing loss larger than 50 dB in high frequencies in guinea pigs. The effect of GABAergic inhibition is linked to the normal functioning of K + –Cl– co-transporter isoform 2 (KCC2) which maintains a low intracellular concentration of chloride. The expression of membrane KCC2 were investigated before and after noise trauma in the ventral and dorsal cochlear nucleus (VCN and DCN, respectively) and in the inferior colliculus (IC). Moreover, the effect of gabazine (GBZ), a GABA antagonist, was also studied on the neural activity in IC. We show that KCC2 is downregulated in VCN, DCN and IC 3 days after noise trauma, and in DCN and IC 30 days after the trauma. As expected, GBZ application in the IC of control animals resulted in an increase of spontaneous and stimulus-evoked activity. In the noise exposed animals, on the other hand, GBZ application decreased the stimulus-evoked activity in IC neurons. The functional implications of these central changes are discussed.
In-vitro and in-vivo assessment of nirmatrelvir penetration into CSF, central nervous system cells, tissues, and peripheral blood mononuclear cells
Authors: Avedissian Sean N. , Malik Johid R. , Podany Anthony T. , Neely Michael , Rhodes Nathaniel J. , Scarsi Kimberly K. , Scheetz Marc H. , Duryee Michael J. , Modebelu Ukamaka O. , Mykris Timothy M. , Winchester Lee C. , Byrareddy Siddappa N. , Fletcher Courtney V. 
Published: May 2024

AbstractThree years after SARS-CoV-2 emerged as a global infectious threat, the virus has become endemic. The neurological complications such as depression, anxiety, and other CNS complications after COVID-19 disease are increasing. The brain, and CSF have been shown as viral reservoirs for SARS-CoV-2, yielding a potential hypothesis for CNS effects. Thus, we investigated the CNS pharmacology of orally dosed nirmatrelvir/ritonavir (NMR/RTV). Using both an in vitro and an in vivo rodent model, we investigated CNS penetration and potential pharmacodynamic activity of NMR. Through pharmacokinetic modeling, we estimated the median CSF penetration of NMR to be low at 18.11% of plasma with very low accumulation in rodent brain tissue. Based on the multiples of the 90% maximal effective concentration (EC90) for SARS-CoV-2, NMR concentrations in the CSF and brain do not achieve an exposure level similar to that of plasma. A median of only 16% of all the predicted CSF concentrations in rats were > 3xEC90 (unadjusted for protein binding). This may have implications for viral persistence and neurologic post-acute sequelae of COVID-19 if increased NMR penetration in the CNS leads to decreased CNS viral loads and decreased CNS inflammation.
Adolescents’ trajectories of depression and anxiety symptoms prior to and during the COVID-19 pandemic and their association with healthy sleep patterns
Authors: Bauducco Serena , Gardner Lauren A. , Smout Scarlett , Champion Katrina E. , Chapman Cath , Gamble Amanda , Teesson Maree , Gradisar Michael , Newton Nicola C. 
Published: May 2024

AbstractThe COVID-19 pandemic has seen a rise in anxiety and depression among adolescents. This study aimed to investigate the longitudinal associations between sleep and mental health among a large sample of Australian adolescents and examine whether healthy sleep patterns were protective of mental health in the context of the COVID-19 pandemic. We used three waves of longitudinal control group data from the Health4Life cluster-randomized trial (N = 2781, baseline Mage = 12.6, SD =  0.51; 47% boys and 1.4% ‘prefer not to say’). Latent class growth analyses across the 2 years period identified four trajectories of depressive symptoms: low-stable (64.3%), average-increasing (19.2%), high-decreasing (7.1%), moderate-increasing (9.4%), and three anxiety symptom trajectories: low-stable (74.8%), average-increasing (11.6%), high-decreasing (13.6%). We compared the trajectories on sociodemographic and sleep characteristics. Adolescents in low-risk trajectories were more likely to be boys and to report shorter sleep latency and wake after sleep onset, longer sleep duration, less sleepiness, and earlier chronotype. Where mental health improved or worsened, sleep patterns changed in the same direction. The subgroups analyses uncovered two important findings: (1) the majority of adolescents in the sample maintained good mental health and sleep habits (low-stable trajectories), (2) adolescents with worsening mental health also reported worsening sleep patterns and vice versa in the improving mental health trajectories. These distinct patterns of sleep and mental health would not be seen using mean-centred statistical approaches.
Diagnostic biomarker discovery from brain EEG data using LSTM, reservoir-SNN, and NeuCube methods in a pilot study comparing epilepsy and migraine
Authors: Saeedinia Samaneh Alsadat , Jahed-Motlagh Mohammad Reza , Tafakhori Abbas , Kasabov Nikola Kirilov 
Published: May 2024

AbstractThe study introduces a new online spike encoding algorithm for spiking neural networks (SNN) and suggests new methods for learning and identifying diagnostic biomarkers using three prominent deep learning neural network models: deep BiLSTM, reservoir SNN, and NeuCube. EEG data from datasets related to epilepsy, migraine, and healthy subjects are employed. Results reveal that BiLSTM hidden neurons capture biological significance, while reservoir SNN activities and NeuCube spiking dynamics identify EEG channels as diagnostic biomarkers. BiLSTM and reservoir SNN achieve 90 and 85% classification accuracy, while NeuCube achieves 97%, all methods pinpointing potential biomarkers like T6, F7, C4, and F8. The research bears implications for refining online EEG classification, analysis, and early brain state diagnosis, enhancing AI models with interpretability and discovery. The proposed techniques hold promise for streamlined brain-computer interfaces and clinical applications, representing a significant advancement in pattern discovery across the three most popular neural network methods for addressing a crucial problem. Further research is planned to study how early can these diagnostic biomarkers predict an onset of brain states.
Pulmonary arteries in coelacanths shed light on the vasculature evolution of air-breathing organs in vertebrates
Authors: Cupello Camila , Clément Gaël , Herbin Marc , Meunier François J. , Brito Paulo M. 
Published: May 2024

AbstractTo date, the presence of pulmonary organs in the fossil record is extremely rare. Among extant vertebrates, lungs are described in actinopterygian polypterids and in all sarcopterygians, including coelacanths and lungfish. However, vasculature of pulmonary arteries has never been accurately identified neither in fossil nor extant coelacanths due to the paucity of fossil preservation of pulmonary organs and limitations of invasive studies in extant specimens. Here we present the first description of the pulmonary vasculature in both fossil and extant actinistian, a non-tetrapod sarcopterygian clade, contributing to a more in-depth discussion on the morphology of these structures and on the possible homology between vertebrate air-filled organs (lungs of sarcopterygians, lungs of actinopterygians, and gas bladders of actinopterygians).