bluuebunny/crossref_metadata_2025_split huggingface dataset:
Increased frequency of light physical activity during midlife and old age buffers against cognitive declines
Authors: Hamm Jeremy M. , Parker Kelly , Lachman Margie E. , Mogle Jacqueline A. , Duggan Katherine A. , McGrath Ryan 
Published: March 2024

AbstractAlthough it is well established that moderate-to-vigorous physical activity (MVPA) buffers against declines in cognitive health, less is known about the benefits of light physical activity (LPA). Research on the role of LPA is crucial to advancing behavioral interventions to improve late life health outcomes, including cognitive functioning, because this form of physical activity remains more feasible and amenable to change in old age. Our study examined the extent to which increases in LPA frequency protected against longitudinal declines in cognitive functioning and whether such a relationship becomes pronounced in old age when opportunities for MVPA are typically reduced. We analyzed 9-year data from the national Midlife in the United States Study (n = 2,229; Mage = 56 years, range = 33–83; 56% female) using autoregressive models that assessed whether change in LPA frequency predicted corresponding changes in episodic memory and executive functioning in middle and later adulthood. Increases in LPA frequency predicted less decline in episodic memory (β = 0.06, p = .004) and executive functioning (β = 0.14, p < .001) over the 9-year follow-up period, even when controlling for moderate and vigorous physical activity. Effect sizes for moderate and vigorous physical activity were less than half that observed for LPA. Moderation models showed that, for episodic memory, the benefits of increases in LPA frequency were more pronounced at older ages. Findings suggest that increases in LPA over extended periods of time may help slow age-related cognitive declines, particularly in later life when opportunities for MVPA are often diminished.
Emotion recognition with EEG-based brain-computer interfaces: a systematic literature review
Authors: Erat Kübra , Şahin Elif Bilge , Doğan Furkan , Merdanoğlu Nur , Akcakaya Ahmet , Durdu Pınar Onay 
Published: March 2024

AbstractElectroencephalography (EEG)-based Brain-Computer Interface (BCI) systems for emotion recognition have the potential to assist the enrichment of human–computer interaction with implicit information since they can enable understanding of the cognitive and emotional activities of humans. Therefore, these systems have become an important research topic today. This study aims to present trends and gaps on this topic by performing a systematic literature review based on the 216 published scientific literature gathered from various databases including ACM, IEEE Xplore, PubMed, Science Direct, and Web of Science from 2016 to 2020. This review gives an overview of all the components of EEG based BCI system from the signal stimulus module which includes the employed device, signal stimuli, and data processing modality, to the signal processing module which includes signal acquisition, pre-processing, feature extraction, feature selection, classification algorithms, and performance evaluation. Thus, this study provides an overview of all components of an EEG-based BCI system for emotion recognition and examines the available evidence in a clear, concise, and systematic way. In addition, the findings are aimed to inform researchers about the issues on what are research trends and the gaps in this field and guide them in their research directions.
Functional traits to predict financial value of enrichment planting in degraded tropical forests
Authors: Lindh Arvid , Sundqvist Maja K. , Axelsson E. Petter , Hasselquist Niles J. , Aguilar Francisco X. , Alloysius David , Ilstedt Ulrik 
Published: March 2024

AbstractDemand for tropical timber is expected to rise due to an increased global need for sustainable renewable materials. However, sustainable tropical timber production remains a challenge for the global wood product supply chain, especially for high-value tropical hardwoods. Restoration of degraded lands through enrichment planting of native hardwood species could provide a solution, but the financial viability of using native tropical tree species remains largely unknown. We evaluated the financial viability of 22 hardwood tree species native to northern Borneo in enrichment plantings of a degraded forest in Sabah, Malaysia. We investigated how the species’ financial value, expressed as an internal rate of return (IRR) based on land expectation value, varied with their functional trait composition. We found that high financial value was positively correlated with trait values associated with a conservative growth strategy, i.e., financial value was negatively correlated with leaf calcium, magnesium, and nitrogen content, as well as with leaf pH and specific leaf area. Trees with these traits showed a high IRR, partly explained by relatively fast growth and high survival rates. For the most economically promising species, Shorea macrophylla, we estimated that enrichment planting for forest restoration could reach IRRs up to 7.8%. Our results showed that enrichment planting for high-value hardwood production in degraded forests can be financially viable, with variation among species, and that various traits associated with a more conservative growth strategy were linked to high financial value.
Virtual multi-institutional tumor board: a strategy for personalized diagnoses and management of rare CNS tumors
Authors: Rogers James L. , Wall Thomas , Acquaye-Mallory Alvina A. , Boris Lisa , Kim Yeonju , Aldape Kenneth , Quezado Martha M. , Butman John A. , Smirniotopoulos James G. , Chaudhry Huma , Tsien Christina I. , Chittiboina Prashant , Zaghloul Kareem , Aboud Orwa , Avgeropoulos Nicholas G. , Burton Eric C. , Cachia David M. , Dixit Karan S. , Drappatz Jan , Dunbar Erin M. , Forsyth Peter , Komlodi-Pasztor Edina , Mandel Jacob , Ozer Byram H. , Lee Eudocia Q. , Ranjan Surabhi , Lukas Rimas V. , Raygada Margarita , Salacz Michael E. , Smith-Cohn Matthew A. , Snyder James , Soldatos Ariane , Theeler Brett J. , Widemann Brigitte C. , Camphausen Kevin A. , Heiss John D. , Armstrong Terri S. , Gilbert Mark R. , Penas-Prado Marta 
Published: March 2024

Abstract
Purpose
Multidisciplinary tumor boards (MTBs) integrate clinical, molecular, and radiological information and facilitate coordination of neuro-oncology care. During the COVID-19 pandemic, our MTB transitioned to a virtual and multi-institutional format. We hypothesized that this expansion would allow expert review of challenging neuro-oncology cases and contribute to the care of patients with limited access to specialized centers.

Methods
We retrospectively reviewed records from virtual MTBs held between 04/2020–03/2021. Data collected included measures of potential clinical impact, including referrals to observational or therapeutic studies, referrals for specialized neuropathology analysis, and whether molecular findings led to a change in diagnosis and/or guided management suggestions.

Results
During 25 meetings, 32 presenters discussed 44 cases. Approximately half (n = 20; 48%) involved a rare central nervous system (CNS) tumor. In 21% (n = 9) the diagnosis was changed or refined based on molecular profiling obtained at the NIH and in 36% (n = 15) molecular findings guided management. Clinical trial suggestions were offered to 31% (n = 13), enrollment in the observational NCI Natural History Study to 21% (n = 9), neuropathology review and molecular testing at the NIH to 17% (n = 7), and all received management suggestions.

Conclusion
Virtual multi-institutional MTBs enable remote expert review of CNS tumors. We propose them as a strategy to facilitate expert opinions from specialized centers, especially for rare CNS tumors, helping mitigate geographic barriers to patient care and serving as a pre-screening tool for studies. Advanced molecular testing is key to obtaining a precise diagnosis, discovering potentially actionable targets, and guiding management.
Skewed distributions of scientists’ productivity: a research program for the empirical analysis
Authors: Bornmann Lutz 
Published: March 2024

AbstractOnly a few scientists are able to publish a substantial number of papers every year; most of the scientists have an output of only a few publications or no publications at all. Several theories (e.g., the “sacred spark” theory) have been proposed in the past to explain these productivity differences that are complementary and focus on different aspects in the publication process. This study is intended to introduce a research program for studying productivity differences in science (skewed distributions of scientists’ productivity). The program is based on the Anna Karenina Principle (AKP). The AKP states that success in research is the result of several prerequisites that are multiplicatively related. Great success results from prerequisites that must be all given. If at least one prerequisite is not given, failure follows, whereby the failure is specific to the set of given and missing prerequisites. High productivity is given for the few scientists who fulfill all prerequisites (e.g., high motivation, pronounced creativity, reputational professional position, early important papers in high-impact journals), and low productivity is connected to a specific combination of missing and fulfilled prerequisites for many scientists. Besides the AKP as theoretical principle, the program for studying productivity differences includes a mathematical concept explaining skewed distributions and statistical methods for empirical productivity analyses.
Higher rat abundance in greener urban areas
Authors: de Cock Marieke P. , Esser Helen J. , van der Poel Wim H. M. , Sprong Hein , Maas Miriam 
Published: March 2024

AbstractUrban greening has become an increasingly popular strategy to improve urban life and human health. However, there are indications that the presence and extent of urban greenness may increase the abundance of wild rats. Therefore, we investigated which environmental and socio-economic factors are associated with rat abundance, with a focus on factors related to urban greenness. We systematically trapped rats (222 Rattus norvegicus and 5 Rattus rattus) in parks and residential areas in three cities in the Netherlands. We modelled the relative abundance of rats against various environmental and socio-economic variables. In addition, we compared municipality rat complaint data with our trapping data and analysed trap success over time. We observed positive relationships between the relative abundance of rats and both greenness (NDVI) and different proxies for food resources (restaurants and petting zoos). In addition, there were more municipality rat complaints in residential areas compared to parks, while there was a higher relative abundance of rats in parks. Our findings corroborate that greenness is associated with a higher abundance of wild rats, and that municipality rat complaints may underestimate the abundance of rats in greener urban areas. This study provides new insights on factors affecting relative rat abundance in cities and can guide policy makers and city planners how to minimize rat nuisance in the greener parts of cities. By taking these potential effects of urban greenness on rat abundance into account, measures can be taken that on the one hand maintain the beneficial effects of urban greening, but at the same time reduce the carrying capacity for rats.
Advances in the kinetics of heat and mass transfer in near-continuous complex flows
Authors: Xu Aiguo , Zhang Dejia , Gan Yanbiao 
Published: March 2024

AbstractThe study of macro continuous flow has a long history. Simultaneously, the exploration of heat and mass transfer in small systems with a particle number of several hundred or less has gained significant interest in the fields of statistical physics and nonlinear science. However, due to absence of suitable methods, the understanding of mesoscale behavior situated between the aforementioned two scenarios, which challenges the physical function of traditional continuous fluid theory and exceeds the simulation capability of microscopic molecular dynamics method, remains considerably deficient. This greatly restricts the evaluation of effects of mesoscale behavior and impedes the development of corresponding regulation techniques. To access the mesoscale behaviors, there are two ways: from large to small and from small to large. Given the necessity to interface with the prevailing macroscopic continuous modeling currently used in the mechanical engineering community, our study of mesoscale behavior begins from the side closer to the macroscopic continuum, that is from large to small. Focusing on some fundamental challenges encountered in modeling and analysis of near-continuous flows, we review the research progress of discrete Boltzmann method (DBM). The ideas and schemes of DBM in coarse-grained modeling and complex physical field analysis are introduced. The relationships, particularly the differences, between DBM and traditional fluid modeling as well as other kinetic methods are discussed. After verification and validation of the method, some applied researches including the development of various physical functions associated with discrete and non-equilibrium effects are illustrated. Future directions of DBM related studies are indicated.
Gut microbiota-dependent phenylacetylglutamine in cardiovascular disease: current knowledge and new insights
Authors: Song Yaonan , Wei Haoran , Zhou Zhitong , Wang Huiqing , Hang Weijian , Wu Junfang , Wang Dao Wen 
Published: March 2024

AbstractPhenylacetylglutamine (PAGln) is an amino acid derivate that comes from the amino acid phenylalanine. There are increasing studies showing that the level of PAGln is associated with the risk of different cardiovascular diseases. In this review, we discussed the metabolic pathway of PAGln production and the quantitative measurement methods of PAGln. We summarized the epidemiological evidence to show the role of PAGln in diagnostic and prognostic value in several cardiovascular diseases, such as heart failure, coronary heart disease/atherosclerosis, and cardiac arrhythmia. The underlying mechanism of PAGln is now considered to be related to the thrombotic potential of platelets via adrenergic receptors. Besides, other possible mechanisms such as inflammatory response and oxidative stress could also be induced by PAGln. Moreover, since PAGln is produced across different organs including the intestine, liver, and kidney, the cross-talk among multiple organs focused on the function of this uremic toxic metabolite. Finally, the prognostic value of PAGln compared to the classical biomarker was discussed and we also highlighted important gaps in knowledge and areas requiring future investigation of PAGln in cardiovascular diseases.
Comprehensive analysis of DNA methylation gene expression profiles in GEO dataset reveals biomarkers related to malignant transformation of sinonasal inverted papilloma
Authors: Mu Li , Hu Shun , Li Guoping , Wu Ping , Zheng Ke , Zhang Sheng 
Published: March 2024

Abstract
Background
DNA methylation may be involved in the regulation of malignant transformation from sinonasal inverted papilloma (SNIP) to squamous cell carcinoma (SCC). The study of gene methylation changes and screening of differentially methylated loci (DMLs) are helpful to predict the possible key genes in the malignant transformation of SNIP-SCC.

Materials and methods
Microarray dataset GSE125399 was downloaded from the Gene Expression Omnibus (GEO) database and differentially methylated loci (DMLs) were analyzed using R language (Limma package). ClusterProfiler R package was used to perform Gene Ontology (GO) analysis on up-methylated genes and draw bubble maps. The Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway and its visualization analysis were analyzed to speculate the possible key Genes in SNIP-SCC malignant transformation. Subsequently, SNIP cases archived in our department were collected, tissue microarray was made, and immunohistochemical staining was performed to analyze the expression levels of UCKL1, GSTT1, HLA-G, MAML2 and NRGN in different grades of sinonasal papilloma tissues.

Results
Analysis of dataset GSE125399 identified 56 DMLs, including 49 upregulated DMLs and 7 downregulated DMLs. Thirty-one genes containing upregulated DNA methylation loci and three genes containing downregulated DNA methylation loci were obtained by methylation microarray annotation analysis. In addition, KEGG pathway visualization analysis of 31 up-methylated genes showed that there were four significantly up-methylated genes including UCKL1, GSTT1, HLA-G and MAML2, and one significantly down-methylated gene NRGN. Subsequently, compared with non-neoplasia nasal epithelial tissues, the expression of HLA-G and NRGN was upregulated in grade I, II, III and IV tissues, while the expression of MAML2 was lost. The protein expression changes of MAML2 and NRGN were significantly negatively correlated with their gene methylation levels.

Conclusions
By analyzing the methylation dataset, we obtained four up-regulated methylation genes UCKL1, GSTT1, HLA-G and MAML2 and one down-regulated gene NRGN. MAML2, a tumor suppressor gene with high methylation modification but loss of protein expression, and NRGN, a tumor gene with low methylation modification but upregulated protein expression, can be used as biological indicators to judge the malignant transformation of SNIP-SCC.
Ecological problems and ecological restoration zoning of the Aral Sea
Authors: Bao Anming , Yu Tao , Xu Wenqiang , Lei Jiaqiang , Jiapaer Guli , Chen Xi , Komiljon Tojibaev , Khabibullo Shomurodov , Sagidullaevich Xabibullaev B. , Kamalatdin Idirisov 
Published: March 2024

AbstractThe Aral Sea was the fourth largest lake in the world but it has shrunk dramatically as a result of irrational human activities, triggering the “Aral Sea ecological crisis”. The ecological problems of the Aral Sea have attracted widespread attention, and the alleviation of the Aral Sea ecological crisis has reached a consensus among the five Central Asian countries (Kazakhstan, Uzbekistan, Tajikistan, Kyrgyzstan, and Turkmenistan). In the past decades, many ecological management measures have been implemented for the ecological restoration of the Aral Sea. However, due to the lack of regional planning and zoning, the results are not ideal. In this study, we mapped the ecological zoning of the Aral Sea from the perspective of ecological restoration based on soil type, soil salinity, surface water, groundwater table, Normalized Difference Vegetation Index (NDVI), land cover, and aerosol optical depth (AOD) data. Soil salinization and salt dust are the most prominent ecological problems in the Aral Sea. The Aral Sea was divided into seven first-level ecological restoration subregions (North Aral Sea catchment area in the downstream of the Syr Darya River (Subregion I); artificial flood overflow areas downstream of the Aral Sea (Subregion II); physical/chemical remediation area of the salt dust source area in the eastern part of the South Aral Sea (Subregion III); physical/chemical remediation areas of severe salinization in the central part of the South Aral Sea (Subregion IV); existing water surface and potential restoration areas of the South Aral Sea (Subregion V); Aral Sea vegetation natural recovery area (Subregion VI); and vegetation planting areas with light salinity in the South Aral Sea (Subregion VII)) and 14 second-level ecological restoration subregions according to the ecological zoning principles. Implementable measures are proposed for each ecological restoration subregion. For Subregion I and Subregion II with lower elevations, artificial flooding should be carried out to restore the surface of the Aral Sea. Subregion III and Subregion IV have severe soil salinization, making it difficult for vegetation to grow. In these subregions, it is recommended to cover and pave the areas with green biomatrix coverings and environmentally sustainable bonding materials. In Subregion V located in the central and western parts of the South Aral Sea, surface water recharge should be increased to ensure that this subregion can maintain normal water levels. In Subregion VI and Subregion VII where natural conditions are suitable for vegetation growth, measures such as afforestation and buffer zones should be implemented to protect vegetation. This study could provide a reference basis for future comprehensive ecological management and restoration of the Aral Sea.
Drought responses in Coffea arabica as affected by genotype and phenophase. I – leaf distribution and branching
Authors: Rakocevic Miroslava , Matsunaga Fabio Takeshi , Pazianotto Ricardo Antônio Almeida , Ramalho José Cochicho , Costes Evelyne , Ribeiro Rafael Vasconcelos 
Published: March 2024

Summary
In Coffea arabica, there is a small genetic distance between wild and bred genotypes. However, coffee genotypes express differential acclimation to multiple drought cycles, allowing them to successfully deal with water-limiting conditions. We hypothesized that bred coffee cultivars have a plant structure less sensitive to drought than wild genotypes. Plant and leaf architecture were analyzed over the coffee strata of two cultivars (Iapar 59 and Catuaí 99) and two wild Ethiopia accessions (‘E083’ and ‘E027’) grown under rainfed conditions and irrigation. During two consecutive productive years, evaluations were taken at leaf and berry expansion (BE1 and BE2) and harvest (BH1 and BH2) phenophases. The plant canopy was divided into up to four strata of 40 cm of thickness. Topological and geometric coding of coffee trees was performed in three botanical scales – metamers, branches, and plants in multiscale tree graphs (MTGs), following the VPlants modeling platform. Leaf and branch area per plant increased with tree structure development, being always significantly higher in irrigated than in rainfed plants over all phenophases. The individual leaf area was the least sensitive to water regime in Catuaí 99, while the 2nd order axis elevation – angle in relation to horizontal plane, ranging from 0° to 90° – of bred cultivars was less sensitive to drought than in ‘E083’. This finding partially corroborated our hypothesis that orchestrated reprograming of leaf/branch responses over the vertical plant profile were less sensitive to water availability in cultivars than in wild accessions. Leaves of 2nd to 4th-order branching were roughly plagiophile, while the 1st-order leaves were classified as extremophiles. When the coffee leaves were planophile, irrespective of genotype, this pattern was found at the lowest, 1st plant stratum, and the newest developed 4th stratum. Such responses were not obligatorily related to water regime, similar to branch elevation – with exception of ‘E083’, very sensitive to drought. Taken together, our data suggest that the leaf and branch elevations in C. arabica were more influenced by light distribution through the canopy profile – i.e., self-shading – than by water availability.