bluuebunny/crossref_metadata_2025_split huggingface dataset:
High-resolution cortical parcellation based on conserved brain landmarks for localization of multimodal data to the nearest centimeter
Authors: McGrath Hari , Zaveri Hitten P. , Collins Evan , Jafar Tamara , Chishti Omar , Obaid Sami , Ksendzovsky Alexander , Wu Kun , Papademetris Xenophon , Spencer Dennis D. 
Published: November 2022

AbstractPrecise cortical brain localization presents an important challenge in the literature. Brain atlases provide data-guided parcellation based on functional and structural brain metrics, and each atlas has its own unique benefits for localization. We offer a parcellation guided by intracranial electroencephalography, a technique which has historically provided pioneering advances in our understanding of brain structure–function relationships. We used a consensus boundary mapping approach combining anatomical designations in Duvernoy’s Atlas of the Human Brain, a widely recognized textbook of human brain anatomy, with the anatomy of the MNI152 template and the magnetic resonance imaging scans of an epilepsy surgery cohort. The Yale Brain Atlas consists of 690 one-square centimeter parcels based around conserved anatomical features and each with a unique identifier to communicate anatomically unambiguous localization. We report on the methodology we used to create the Atlas along with the findings of a neuroimaging study assessing the accuracy and clinical usefulness of cortical localization using the Atlas. We also share our vision for the Atlas as a tool in the clinical and research neurosciences, where it may facilitate precise localization of data on the cortex, accurate description of anatomical locations, and modern data science approaches using standardized brain regions.
A data driven machine learning approach to differentiate between autism spectrum disorder and attention-deficit/hyperactivity disorder based on the best-practice diagnostic instruments for autism
Authors: Wolff Nicole , Kohls Gregor , Mack Judith T. , Vahid Amirali , Elster Erik M. , Stroth Sanna , Poustka Luise , Kuepper Charlotte , Roepke Stefan , Kamp-Becker Inge , Roessner Veit 
Published: November 2022

AbstractAutism spectrum disorder (ASD) and attention-deficit/hyperactivity disorder (ADHD) are two frequently co-occurring neurodevelopmental conditions that share certain symptomatology, including social difficulties. This presents practitioners with challenging (differential) diagnostic considerations, particularly in clinically more complex cases with co-occurring ASD and ADHD. Therefore, the primary aim of the current study was to apply a data-driven machine learning approach (support vector machine) to determine whether and which items from the best-practice clinical instruments for diagnosing ASD (ADOS, ADI-R) would best differentiate between four groups of individuals referred to specialized ASD clinics (i.e., ASD, ADHD, ASD + ADHD, ND = no diagnosis). We found that a subset of five features from both ADOS (clinical observation) and ADI-R (parental interview) reliably differentiated between ASD groups (ASD & ASD + ADHD) and non-ASD groups (ADHD & ND), and these features corresponded to the social-communication but also restrictive and repetitive behavior domains. In conclusion, the results of the current study support the idea that detecting ASD in individuals with suspected signs of the diagnosis, including those with co-occurring ADHD, is possible with considerably fewer items relative to the original ADOS/2 and ADI-R algorithms (i.e., 92% item reduction) while preserving relatively high diagnostic accuracy. Clinical implications and study limitations are discussed.
Liquid lithium as divertor material to mitigate severe damage of nearby components during plasma transients
Authors: Sizyuk V. , Hassanein A. 
Published: November 2022

AbstractThe successful operation of thermonuclear fusion reactors such as ITER, DEMO, and future commercial plants is mainly determined by the optimum choice of materials for various components. The objective of this work is to accurately and comprehensively simulate the entire device in 3D to predict pros and cons of various materials, e.g., liquid lithium in comparison to tungsten and carbon to predict future ITER-like and DEMO divertor performances. We used our comprehensive HEIGHTS simulation package to investigate ITER-like components response during transient events in exact 3D geometry. Starting from the lost hot core plasma particles through SOL, deposition on the divertor surface, and the generation of secondary plasma of divertor materials. Our simulations predicted significant reduction in the heat loading and damage to the divertor nearby and internal components in the case when lithium is used on the divertor plates. While if tungsten or carbon are used on the divertor plate, significant melting areas and vaporization spots can occur (less for carbon) on the reflector, dome, and stainless steel tubes, and even parts of the first walls can melt due to the high radiation power of the secondary divertor plasma. Lithium photon radiation deposition into the divertor and nearby surfaces was decreased by two orders of magnitude compared to tungsten and by one order of magnitude compared to carbon. This analysis showed that using liquid lithium for ITER-like surfaces and future DEMO can lead to significant enhancement in components lifetime.
Facile and cost-effective technique to control europium oxidation states in glassy fluorophosphate matrices with tunable photoluminescence
Authors: Jarocka Agata , Fetliński Bartosz , Dębowski Paweł , Pietrzak Tomasz K. , Jurak Kacper , Wasiucionek Marek 
Published: November 2022

AbstractInorganic fluorophosphate glasses doped with Eu$$^{2+}$$

2
+

/Eu$$^{3+}$$

3
+

are potential candidates for phosphors for commercial white LEDs. This report presents a fast, inexpensive and effective method of controlling the relative concentrations of Eu$$^{2+}$$

2
+

/Eu$$^{3+}$$

3
+

photoluminescent centers in these glasses. The technique consists of a fast quenching of the melt of initial reagents under appropriate conditions. Eu$$^{2+}$$

2
+

/Eu$$^{3+}$$

3
+

ratio was controlled by carrying out the melting under a reducing atmosphere at a temperature between 1000 and 1200 $$^\circ$$

∘

C for periods of 5 to 15 minutes. The reducing atmosphere was provided by a ’double crucible’ technique and did not require special gas lines during the synthesis. The samples were studied by several complementary experimental methods (X-ray diffractometry—XRD, X-ray photoelectron spectroscopy—XPS, photoluminescence—PL—and photoluminescence excitation—PLE—spectroscopies as well as optical transmission spectroscopy). It was shown that the syntheses resulted in amorphous materials with different relative Eu$$^{2+}$$

2
+

/Eu$$^{3+}$$

3
+

concentration ratios, strongly dependent on the preparation conditions: the temperature and the time of melting in a reducing atmosphere. Moreover, changes in these ratios strongly affected the materials’ PL and PLE spectra. Demonstration of reproducible smooth transition from amaranth to blue luminescence color, with white in between, was the most spectacular result of this work.
Elucidating host cell response pathways and repurposing therapeutics for SARS-CoV-2 and other coronaviruses
Authors: Shen Zhewei , Halberg Anna , Fong Jia Yi , Guo Jingyu , Song Gavin , Louie Brent , Luedtke Gregory R. , Visuthikraisee Viwat , Protter Andrew A. , Koh Xiaoying , Baik Taegon , Lum Pek Yee 
Published: November 2022

AbstractCOVID-19, first reported in late 2019, is an ongoing pandemic that has been causing devastation across the globe. Although there are multiple vaccines that can prevent severe symptoms, effective COVID-19 therapeutics are still of importance. Using our proprietary in silico engine, we screened more than 22,000 unique compounds represented by over half a million gene expression profiles to uncover compounds that can be repurposed for SARS-CoV-2 and other coronaviruses in a timely and cost-efficient manner. We then tested 13 compounds in vitro and found three with potency against SARS-CoV-2 with reasonable cytotoxicity. Bortezomib and homoharringtonine are some of the most promising hits with IC50 of 1.39 μM and 0.16 μM, respectively for SARS-CoV-2. Tanespimycin and homoharringtonine were effective against the common cold coronaviruses. In-depth analysis highlighted proteasome, ribosome, and heat shock pathways as key targets in modulating host responses during viral infection. Further studies of these pathways and compounds have provided novel and impactful insights into SARS-CoV-2 biology and host responses that could be further leveraged for COVID-19 therapeutics development.
A colonial-nesting seabird shows no heart-rate response to drone-based population surveys
Authors: Geldart Erica A. , Barnas Andrew F. , Semeniuk Christina A. D. , Gilchrist H. Grant , Harris Christopher M. , Love Oliver P. 
Published: November 2022

AbstractAerial drones are increasingly being used as tools for ecological research and wildlife monitoring in hard-to-access study systems, such as in studies of colonial-nesting birds. Despite their many advantages over traditional survey methods, there remains concerns about possible disturbance effects that standard drone survey protocols may have on bird colonies. There is a particular gap in the study of their influence on physiological measures of stress. We measured heart rates of incubating female common eider ducks (Somateria mollissima) to determine whether our drone-based population survey affected them. To do so, we used heart-rate recorders placed in nests to quantify their heart rate in response to a quadcopter drone flying transects 30 m above the nesting colony. Eider heart rate did not change from baseline (measured in the absence of drone survey flights) by a drone flying at a fixed altitude and varying horizontal distances from the bird. Our findings suggest that carefully planned drone-based surveys of focal species have the potential to be carried out without causing physiological impacts among colonial-nesting eiders.
Effects of dietary supplementation of myco-fabricated zinc oxide nanoparticles on performance, histological changes, and tissues Zn concentration in broiler chicks
Authors: Hatab M. H. , Rashad E. , Saleh Hisham M. , El-Sayed El-Sayed R. , Taleb A. M. Abu 
Published: November 2022

AbstractA five weeks biological experiment was planned to investigate the impacts of dietary supplementation with zinc oxide nanoparticles (ZnONPs) synthesized by the endophytic fungus Alternaria tenuissima on productive performance, carcass traits, organ relative weights, serum biochemical parameters, histological alteration in some internal organs and concentration of this element in the serum, liver, thigh and breast muscle in broiler chicks. A total of 108 3-day-old commercial broiler chicks (Cobb 500) were individually weighed and equally distributed in a completely randomized design arrangement according to the dose of ZnONPs supplementation into 3 dietary experimental groups. There were 6 replications having 6 birds per replicate (n = 36/ treatment) for each treatment. The three experiential dietary treatments received corn-soybean meal-based diets enhanced with 0 (control), 40 and 60 mg/kg diet of ZnONPs respectively with feed and water were provided ad libitum consumption through 5 weeks life span. Present results indicated that after 5 weeks of feeding trial and as compared to control, the ZnONPs supplementation groups recorded higher body weight, improved feed consumption, feed conversion ratio and performance index. Serum biochemical analyses revealed that serum cholesterol, triglyceride, low density lipoprotein and uric acid decreased significantly, while high density lipoprotein and liver enzyme concentrations were increased significantly. Meanwhile, zinc accumulation in serum, liver and breast and thigh muscle were linearly increased with increasing zinc supplementation. It could be concluded that supplementation of ZnONPs to broiler diet at 40 or 60 mg/kg improved productive performance, birds' physiological status and the lower levels Zn (40 mg/kg diet) revealed promising results and can be used as an effective feed additive in broilers.
Construction of N-7 methylguanine-related mRNA prognostic model in uterine corpus endometrial carcinoma based on multi-omics data and immune-related analysis
Authors: Zhao Junde , Zou Jiani , Jiao Wenjian , Lin Lidong , Wang Jiuling , Lin Zhiheng 
Published: November 2022

AbstractN-7 methylguanine (m7G) is one of the most common RNA base modifications in post-transcriptional regulation, which participates in multiple processes such as transcription, mRNA splicing and translation during the mRNA life cycle. However, its expression and prognostic value in uterine corpus endometrial carcinoma (UCEC) have not been systematically studied. In this paper, the data such as gene expression profiles, clinical data of UCEC patients, somatic mutations and copy number variants (CNVs) are obtained from the cancer genome atlas (TCGA) and UCSC Xena. By analyzing the expression differences of m7G-related mRNA in UCEC and plotting the correlation network maps, a risk score model composed of four m7G-related mRNAs (NSUN2, NUDT3, LARP1 and NCBP3) is constructed using least absolute shrinkage and selection operator (LASSO), univariate and multivariate Cox regression in order to identify prognosis and immune response. The correlation of clinical prognosis is analyzed between the m7G-related mRNA and UCEC via Kaplan–Meier method, receiver operating characteristic (ROC) curve, principal component analysis (PCA), t-SNE, decision curve analysis (DCA) curve and nomogram etc. It is concluded that the high risk is significantly correlated with (P < 0.001) the poorer overall survival (OS) in patients with UCEC. It is one of the independent risk factors affecting the OS. Differentially expressed genes are identified by R software in the high and low risk groups. The functional analysis and pathway enrichment analysis have been performed. Single sample gene set enrichment analysis (ssGSEA), immune checkpoints, m6A-related genes, tumor mutation burden (TMB), stem cell correlation, tumor immune dysfunction and rejection (TIDE) scores and drug sensitivity are also used to study the risk model. In addition, we have obtained 3 genotypes based on consensus clustering, which are significantly related to (P < 0.001) the OS and progression-free survival (PFS). The deconvolution algorithm (CIBERSORT) is applied to calculate the proportion of 22 tumor infiltrating immune cells (TIC) in UCEC patients and the estimation algorithm (ESTIMATE) is applied to work out the number of immune and matrix components. In summary, m7G-related mRNA may become a potential biomarker for UCEC prognosis, which may promote UCEC occurrence and development by regulating cell cycles and immune cell infiltration. It is expected to become a potential therapeutic target of UECE.
Atomically resolved electronic properties in single layer graphene on α-Al2O3 (0001) by chemical vapor deposition
Authors: Wördenweber Henrik , Karthäuser Silvia , Grundmann Annika , Wang Zhaodong , Aussen Stephan , Kalisch Holger , Vescan Andrei , Heuken Michael , Waser Rainer , Hoffmann-Eifert Susanne 
Published: November 2022

AbstractMetal-free chemical vapor deposition (CVD) of single-layer graphene (SLG) on c-plane sapphire has recently been demonstrated for wafer diameters of up to 300 mm, and the high quality of the SLG layers is generally characterized by integral methods. By applying a comprehensive analysis approach, distinct interactions at the graphene-sapphire interface and local variations caused by the substrate topography are revealed. Regions near the sapphire step edges show tiny wrinkles with a height of about 0.2 nm, framed by delaminated graphene as identified by the typical Dirac cone of free graphene. In contrast, adsorption of CVD SLG on the hydroxyl-terminated α-Al2O3 (0001) terraces results in a superstructure with a periodicity of (2.66 ± 0.03) nm. Weak hydrogen bonds formed between the hydroxylated sapphire surface and the π-electron system of SLG result in a clean interface. The charge injection induces a band gap in the adsorbed graphene layer of about (73 ± 3) meV at the Dirac point. The good agreement with the predictions of a theoretical analysis underlines the potential of this hybrid system for emerging electronic applications.
Religiosity is associated with greater size, kin density, and geographic dispersal of women’s social networks in Bangladesh
Authors: Lynch R. , Schaffnit S. , Sear R. , Sosis R. , Shaver J. , Alam N. , Blumenfield T. , Mattison S. M. , Shenk M. 
Published: November 2022

AbstractHuman social relationships, often grounded in kinship, are being fundamentally altered by globalization as integration into geographically distant markets disrupts traditional kin based social networks. Religion plays a significant role in regulating social networks and may both stabilize extant networks as well as create new ones in ways that are under-recognized during the process of market integration. Here we use a detailed survey assessing the social networks of women in rural Bangladesh to examine whether religiosity preserves bonds among kin or broadens social networks to include fellow practitioners, thereby replacing genetic kin with unrelated co-religionists. Results show that the social networks of more religious women are larger and contain more kin but not more non-kin. More religious women’s networks are also more geographically diffuse and differ from those of less religious women by providing more emotional support, but not helping more with childcare or offering more financial assistance. Overall, these results suggest that in some areas experiencing rapid social, economic, and demographic change, religion, in certain contexts, may not serve to broaden social networks to include non-kin, but may rather help to strengthen ties between relatives and promote family cohesion.
Analysis of the twenty-six largest outbreaks of tuberculosis in Aragon using whole-genome sequencing for surveillance purposes
Authors: Comín Jessica , Cebollada Alberto , Ibarz Daniel , Viñuelas Jesús , Sahagún Juan , Torres Luis , Iglesias María-José , Samper Sofía 
Published: November 2022

AbstractThe incidence of tuberculosis in Aragon, Spain, is around ten cases per 100,000 inhabitants. Since 2004, a molecular surveillance protocol has been carried out; therefore, all M. tuberculosis strains are genotyped. Recently, whole-genome sequencing has been implemented for relevant isolates. The aim of this work is to characterise at the molecular level the causative strains of the 26 largest outbreaks of the community (including ten or more cases), genotyped by IS6110-RFLP and causing 26% of tuberculosis cases. To achieve this objective, two or three isolates of each IS6110-cluster belonging to different years were selected for sequencing. We found that strains of lineages L4.8, L4.3 and L4.1.2 were the most frequent. The threshold of 12 SNPs as the maximum distance for confirming the belonging to an outbreak was met for 18 of the 26 IS6110-clusters. Four pairs of isolates with more than 90 SNPs were identified as not belonging to the same strain, and four other pairs were kept in doubt as the number of SNPs was close to 12, between 14 and 35. The study of Regions of Difference revealed that they are lineage conserved. Moreover, we could analyse the IS6110 locations for all genome-sequenced isolates, finding some frequent locations in isolates belonging to the same lineage and certain IS6110 movements between the paired isolates. In the vast majority, these movements were not captured by the IS6110-RFLP pattern. After classifying the genes containing SNP by their functional category, we could confirm that the number of SNPs detected in genes considered as virulence factors and the number of cases the strain produced were not related, suggesting that a particular SNP is more relevant than the number. The characteristics found in the most successful strains in our community could be useful for other researchers in epidemiology, virulence and pathogenesis.
Neural underpinning of Japanese particle processing in non-native speakers
Authors: Kasai Chise , Sumiya Motofumi , Koike Takahiko , Yoshimoto Takaaki , Maki Hideki , Sadato Norihiro 
Published: November 2022

AbstractGrammar acquisition by non-native learners (L2) is typically less successful and may produce fundamentally different grammatical systems than that by native speakers (L1). The neural representation of grammatical processing between L1 and L2 speakers remains controversial. We hypothesized that working memory is the primary source of L1/L2 differences, by considering working memory within the predictive coding account, which models grammatical processes as higher-level neuronal representations of cortical hierarchies, generating predictions (forward model) of lower-level representations. A functional MRI study was conducted with L1 Japanese speakers and highly proficient Japanese learners requiring oral production of grammatically correct Japanese particles. We assumed selecting proper particles requires forward model-dependent processes of working memory as their functions are highly context-dependent. As a control, participants read out a visually designated mora indicated by underlining. Particle selection by L1/L2 groups commonly activated the bilateral inferior frontal gyrus/insula, pre-supplementary motor area, left caudate, middle temporal gyrus, and right cerebellum, which constituted the core linguistic production system. In contrast, the left inferior frontal sulcus, known as the neural substrate of verbal working memory, showed more prominent activation in L2 than in L1. Thus, the working memory process causes L1/L2 differences even in highly proficient L2 learners.
Molecular phylogeny of selected dorid nudibranchs based on complete mitochondrial genome
Authors: Do Thinh Dinh , Jung Dae-Wui , Kim Chang-Bae 
Published: November 2022

AbstractDorid nudibranchs are a large group of mollusks with approximately 2,000 recorded species. Although agreement exists on the monophyletic nature of the dorid nudibranch group, the interfamily relationships of the suborder are subject to debate. Despite efforts to elucidate this issue using short molecular markers, the conclusiveness of the findings has been hindered by branching polytomy. Mitogenomes are known to be effective markers for use in phylogenetic investigations. In this study, eight mitogenomes of dorid nudibranchs were decoded and analyzed. Gene content and structure showed little change among species, reflecting the conserved mitogenomes of dorid nudibranchs. For most genes, the direction was typical for nudibranchs; nevertheless, tRNACyshad an inverse direction in Cadlinidae species. Phylogenetic trees based on nucleotide and amino acid datasets revealed a relatively consistent pattern of interfamily relationships with little difference for positions of Phyllidiidae and Cadlinidae. Species of Cadlinidae were clustered together and did not form a clade with Chromododidae. Additionally, Goniodorididae was sister to Aegiridae, whereas Discodoridae was sister to Dorididae. This finding was supported by tree topology test based on mitogenome data. The results of the present study indicate that complete mitogenomes are promising markers for investigating interfamily relationships among dorid nudibranchs.