bluuebunny/crossref_metadata_2025_split huggingface dataset:
Reactive wetting enabled anchoring of non-wettable iron oxide in liquid metal for miniature soft robot
Authors: Shen Yifeng , Jin Dongdong , Fu Mingming , Liu Sanhu , Xu Zhiwu , Cao Qinghua , Wang Bo , Li Guoqiang , Chen Wenjun , Liu Shaoqin , Ma Xing 
Published: October 2023

AbstractMagnetic liquid metal (LM) soft robots attract considerable attentions because of distinctive immiscibility, deformability and maneuverability. However, conventional LM composites relying on alloying between LM and metallic magnetic powders suffer from diminished magnetism over time and potential safety risk upon leakage of metallic components. Herein, we report a strategy to composite inert and biocompatible iron oxide (Fe3O4) magnetic nanoparticles into eutectic gallium indium LM via reactive wetting mechanism. To address the intrinsic interfacial non-wettability between Fe3O4 and LM, a silver intermediate layer was introduced to fuse with indium component into AgxIny intermetallic compounds, facilitating the anchoring of Fe3O4 nanoparticles inside LM with improved magnetic stability. Subsequently, a miniature soft robot was constructed to perform various controllable deformation and locomotion behaviors under actuation of external magnetic field. Finally, practical feasibility of applying LM soft robot in an ex vivo porcine stomach was validated under in-situ monitoring by endoscope and X-ray imaging.
Integrin signaling is critical for myeloid-mediated support of T-cell acute lymphoblastic leukemia
Authors: Lyu Aram , Humphrey Ryan S. , Nam Seo Hee , Durham Tyler A. , Hu Zicheng , Arasappan Dhivya , Horton Terzah M. , Ehrlich Lauren I. R. 
Published: October 2023

AbstractWe previously found that T-cell acute lymphoblastic leukemia (T-ALL) requires support from tumor-associated myeloid cells, which activate Insulin Like Growth Factor 1 Receptor (IGF1R) signaling in leukemic blasts. However, IGF1 is not sufficient to sustain T-ALL in vitro, implicating additional myeloid-mediated signals in leukemia progression. Here, we find that T-ALL cells require close contact with myeloid cells to survive. Transcriptional profiling and in vitro assays demonstrate that integrin-mediated cell adhesion activates downstream focal adhesion kinase (FAK)/ proline-rich tyrosine kinase 2 (PYK2), which are required for myeloid-mediated T-ALL support, partly through activation of IGF1R. Blocking integrin ligands or inhibiting FAK/PYK2 signaling diminishes leukemia burden in multiple organs and confers a survival advantage in a mouse model of T-ALL. Inhibiting integrin-mediated adhesion or FAK/PYK2 also reduces survival of primary patient T-ALL cells co-cultured with myeloid cells. Furthermore, elevated integrin pathway gene signatures correlate with higher FAK signaling and myeloid gene signatures and are associated with an inferior prognosis in pediatric T-ALL patients. Together, these findings demonstrate that integrin activation and downstream FAK/PYK2 signaling are important mechanisms underlying myeloid-mediated support of T-ALL progression.
Metabolic phenotyping of BMI to characterize cardiometabolic risk: evidence from large population-based cohorts
Authors: Beyene Habtamu B. , Giles Corey , Huynh Kevin , Wang Tingting , Cinel Michelle , Mellett Natalie A. , Olshansky Gavriel , Meikle Thomas G. , Watts Gerald F. , Hung Joseph , Hui Jennie , Cadby Gemma , Beilby John , Blangero John , Moses Eric K. , Shaw Jonathan E. , Magliano Dianna J. , Meikle Peter J. 
Published: October 2023

AbstractObesity is a risk factor for type 2 diabetes and cardiovascular disease. However, a substantial proportion of patients with these conditions have a seemingly normal body mass index (BMI). Conversely, not all obese individuals present with metabolic disorders giving rise to the concept of “metabolically healthy obese”. We use lipidomic-based models for BMI to calculate a metabolic BMI score (mBMI) as a measure of metabolic dysregulation associated with obesity. Using the difference between mBMI and BMI (mBMIΔ), we identify individuals with a similar BMI but differing in their metabolic health and disease risk profiles. Exercise and diet associate with mBMIΔ suggesting the ability to modify mBMI with lifestyle intervention. Our findings show that, the mBMI score captures information on metabolic dysregulation that is independent of the measured BMI and so provides an opportunity to assess metabolic health to identify “at risk” individuals for targeted intervention and monitoring.
Immunosuppression causes dynamic changes in expression QTLs in psoriatic skin
Authors: Xiao Qian , Mears Joseph , Nathan Aparna , Ishigaki Kazuyoshi , Baglaenko Yuriy , Lim Noha , Cooney Laura A. , Harris Kristina M. , Anderson Mark S. , Fox David A. , Smilek Dawn E. , Krueger James G. , Raychaudhuri Soumya 
Published: October 2023

AbstractPsoriasis is a chronic, systemic inflammatory condition primarily affecting skin. While the role of the immune compartment (e.g., T cells) is well established, the changes in the skin compartment are more poorly understood. Using longitudinal skin biopsies (n = 375) from the “Psoriasis Treatment with Abatacept and Ustekinumab: A Study of Efficacy”(PAUSE) clinical trial (n = 101), we report 953 expression quantitative trait loci (eQTLs). Of those, 116 eQTLs have effect sizes that were modulated by local skin inflammation (eQTL interactions). By examining these eQTL genes (eGenes), we find that most are expressed in the skin tissue compartment, and a subset overlap with the NRF2 pathway. Indeed, the strongest eQTL interaction signal – rs1491377616-LCE3C– links a psoriasis risk locus with a gene specifically expressed in the epidermis. This eQTL study highlights the potential to use biospecimens from clinical trials to discover in vivo eQTL interactions with therapeutically relevant environmental variables.
Spectroscape enables real-time query and visualization of a spectral archive in proteomics
Authors: Wu Long , Hoque Ayman , Lam Henry 
Published: October 2023

AbstractIn proteomics, spectral archives organize the enormous amounts of publicly available peptide tandem mass spectra by similarity, offering opportunities for error correction and novel discoveries. Here we adapt an indexing algorithm developed by Facebook for organizing online multimedia resources to tandem mass spectra and achieve practically instantaneous retrieval and clustering of approximate nearest neighbors in a large spectral archive. An interactive web-based graphical user interface enables the user to view a query spectrum in its clustered neighborhood, which facilitates contextual validation of peptide identifications and exploration of the dark proteome.
Open structure and gating of the Arabidopsis mechanosensitive ion channel MSL10
Authors: Zhang Jingying , Maksaev Grigory , Yuan Peng 
Published: October 2023

AbstractPlants are challenged by drastically different osmotic environments during growth and development. Adaptation to these environments often involves mechanosensitive ion channels that can detect and respond to mechanical force. In the model plant Arabidopsis thaliana, the mechanosensitive channel MSL10 plays a crucial role in hypo-osmotic shock adaptation and programmed cell death induction, but the molecular basis of channel function remains poorly understood. Here, we report a structural and electrophysiological analysis of MSL10. The cryo-electron microscopy structures reveal a distinct heptameric channel assembly. Structures of the wild-type channel in detergent and lipid environments, and in the absence of membrane tension, capture an open conformation. Furthermore, structural analysis of a non-conductive mutant channel demonstrates that reorientation of phenylalanine side chains alone, without main chain rearrangements, may generate the hydrophobic gate. Together, these results reveal a distinct gating mechanism and advance our understanding of mechanotransduction.
An airlock concept to reduce contamination risks during the human exploration of Mars
Authors: Vrankar Daniel , Verseux Cyprien , Heinicke Christiane 
Published: October 2023

AbstractProtecting the Martian environment from contamination with terrestrial microbes is generally seen as essential to the scientific exploration of Mars, especially when it comes to the search for indigenous life. However, while companies and space agencies aim at getting to Mars within ambitious timelines, the state-of-the-art planetary protection measures are only applicable to uncrewed spacecraft. With this paper, we attempt to reconcile these two conflicting goals: the human exploration of Mars and its protection from biological contamination. In our view, the one nominal mission activity that is most prone to introducing terrestrial microbes into the Martian environment is when humans leave their habitat to explore the Martian surface, if one were to use state-of-the-art airlocks. We therefore propose to adapt airlocks specifically to the goals of planetary protection. We suggest a concrete concept for such an adapted airlock, believing that only practical and implementable solutions will be followed by human explorers in the long run.
Effects of sodium nitrite reduction, removal or replacement on cured and cooked meat for microbiological growth, food safety, colon ecosystem, and colorectal carcinogenesis in Fischer 344 rats
Authors: Guéraud Françoise , Buisson Charline , Promeyrat Aurélie , Naud Nathalie , Fouché Edwin , Bézirard Valérie , Dupuy Jacques , Plaisancié Pascale , Héliès-Toussaint Cécile , Trouilh Lidwine , Martin Jean-Luc , Jeuge Sabine , Keuleyan Eléna , Petit Noémie , Aubry Laurent , Théodorou Vassilia , Frémaux Bastien , Olier Maïwenn , Caderni Giovanna , Kostka Tina , Nassy Gilles , Santé-Lhoutellier Véronique , Pierre Fabrice 
Published: October 2023

AbstractEpidemiological and experimental evidence indicated that processed meat consumption is associated with colorectal cancer risks. Several studies suggest the involvement of nitrite or nitrate additives via N-nitroso-compound formation (NOCs). Compared to the reference level (120 mg/kg of ham), sodium nitrite removal and reduction (90 mg/kg) similarly decreased preneoplastic lesions in F344 rats, but only reduction had an inhibitory effect on Listeria monocytogenes growth comparable to that obtained using the reference nitrite level and an effective lipid peroxidation control. Among the three nitrite salt alternatives tested, none of them led to a significant gain when compared to the reference level: vegetable stock, due to nitrate presence, was very similar to this reference nitrite level, yeast extract induced a strong luminal peroxidation and no decrease in preneoplastic lesions in rats despite the absence of NOCs, and polyphenol rich extract induced the clearest downward trend on preneoplastic lesions in rats but the concomitant presence of nitrosyl iron in feces. Except the vegetable stock, other alternatives were less efficient than sodium nitrite in reducing L. monocytogenes growth.
Homologous Pairs of Low and High Temperature Originating Proteins Spanning the Known Prokaryotic Universe
Authors: Komp Evan , Alanzi Humood N. , Francis Ryan , Vuong Chau , Roberts Logan , Mosallanejad Amin , Beck David A. C. 
Published: October 2023

AbstractStability of proteins at high temperature has been a topic of interest for many years, as this attribute is favourable for applications ranging from therapeutics to industrial chemical manufacturing. Our current understanding and methods for designing high-temperature stability into target proteins are inadequate. To drive innovation in this space, we have curated a large dataset, learn2thermDB, of protein-temperature examples, totalling 24 million instances, and paired proteins across temperatures based on homology, yielding 69 million protein pairs - orders of magnitude larger than the current largest. This important step of pairing allows for study of high-temperature stability in a sequence-dependent manner in the big data era. The data pipeline is parameterized and open, allowing it to be tuned by downstream users. We further show that the data contains signal for deep learning. This data offers a new doorway towards thermal stability design models.
A comprehensive dataset of animal-associated sarbecoviruses
Authors: Liu Bo , Zhao Peng , Xu Panpan , Han Yelin , Wang Yuyang , Chen Lihong , Wu Zhiqiang , Yang Jian 
Published: October 2023

AbstractZoonotic spillover of sarbecoviruses (SarbeCoVs) from non-human animals to humans under natural conditions has led to two large-scale pandemics, the severe acute respiratory syndrome (SARS) pandemic in 2003 and the ongoing COVID-19 pandemic. Knowledge of the genetic diversity, geographical distribution, and host specificity of SarbeCoVs is therefore of interest for pandemic surveillance and origin tracing of SARS-CoV and SARS-CoV-2. This study presents a comprehensive repository of publicly available animal-associated SarbeCoVs, covering 1,535 viruses identified from 63 animal species distributed in 43 countries worldwide (as of February 14,2023). Relevant meta-information, such as host species, sampling time and location, was manually curated and included in the dataset to facilitate further research on the potential patterns of viral diversity and ecological characteristics. In addition, the dataset also provides well-annotated sequence sets of receptor-binding domains (RBDs) and receptor-binding motifs (RBMs) for the scientific community to highlight the potential determinants of successful cross-species transmission that could be aid in risk estimation and strategic design for future emerging infectious disease control and prevention.
Creating a dataset of historic roads in Sydney from scanned maps
Authors: Turner Hamish , Lahoorpoor Bahman , Levinson David M. 
Published: October 2023

AbstractThis study creates a historic dataset of road opening dates in Sydney. A method was developed for map digitization to extract spatial data from historic maps and place them in a collective vector layer. The method includes extensive georeferencing of the maps, as well as editing and cleaning the maps through raster and vector analysis. Preferred methods for map digitization used in the project were identified. For a considerable area of Sydney, in which approximately 52000 road links were included, almost half of the links were identified with an open date by the start of the twentieth century. A further half of these links were confined to opening within a thirty-year period. The project has established a strong foundation for a historic road dataset for Sydney. It has also outlined methods and procedures that can be followed to progress the dataset further.
Formation of multiple complex light structures simultaneously in 3D volume using a single binary phase mask
Authors: Kumar Amit , Thakur Sarvesh , Biswas S. K. 
Published: October 2023

AbstractComplex structure formation inside or through turbid media is a challenging task due to refractive index inhomogeneity, random light scattering, and speckle noise formation. In this article, we have coupled the data regression model in the R-squared metric and used its advantages as a fitness function in the genetic algorithm to advance the resolution and structural uniformity. As a compatible system with the binary genetic algorithm, we have presented a cost-effective iterative wavefront shaping system-design with binary phase modulation using an affordable ferroelectric liquid crystal (FLC) based binary-phase spatial light modulator (SLM). R-squared metric in the genetic algorithm is analyzed to optimize the binary phase mask, and the prototype system based on iterative binary phase modulation has been validated with a 120-grit ground glass diffuser and fresh chicken tissues of thickness 307 $${\upmu }\text {m}$$

μ
m

and 812 $${\upmu }\text {m}$$

μ
m

. The detailed results show that the proposed cost-effective wavefront shaping system with data regression model assisted R-squared fitness function can construct high-resolution multiple complex hetero-structures simultaneously in 3D volume using an optimized single phase-mask.
Increase on environmental seasonality through the European Early Pleistocene inferred from dental enamel hypoplasia
Authors: Fidalgo Darío , Rosas Antonio , Bartolini-Lucenti Saverio , Boisserie Jean-Renaud , Pandolfi Luca , Martínez-Navarro Bienvenido , Palmqvist Paul , Rook Lorenzo , Madurell-Malapeira Joan 
Published: October 2023

AbstractAn in-depth study of the Early Pleistocene European remains of Hippopotamus has allowed the first detailed description of the incidence and types of dental alterations related to palaeopathologies and potentially linked to climatic and environmental factors. The results of a long-term qualitative and quantitative assessment highlight the importance of nutrient deficiencies on the development of dental enamel hypoplasia in Hippopotamus. Glacial cyclicity and the resulting changes in humidity and plant community structure conditioned the local environments critical for the survival of this taxon. Two main intervals of putative constrained nutritionally restrictions were detected at ca. 1.8 Ma and ca. 0.86 Ma (i.e., MIS63 and MIS21, respectively). Statistical comparisons show an increase in the frequency of dental hypoplasia between these two chronological periods, thus reinforcing the idea of increased seasonality in the circum-Mediterranean environments during the Early Pleistocene.
The prevalence of SCT in China, its comorbidity with ADHD and its association with life events and parental-rearing behaviors
Authors: Li Fenghua , Luo Jie , Qi Yanjie , Huang Huanhuan , Wu Yuanzhen , Xu Gaoyang , Liu Zhengkui , He Fan , Zheng Yi 
Published: October 2023

AbstractAlthough sluggish cognitive tempo (SCT) symptoms are often observed in children with attention deficit hyperactivity disorder (ADHD), an increasing number of studies have highlighted its uniqueness. Nevertheless, no national survey on SCT among children and adolescents has been conducted in China. Hence, this research aims to study SCT in China and to evaluate the differences between SCT and ADHD symptoms by comparing their risk factors in terms of life events (LE) and parental rearing behaviors (PRB). This cross-sectional study used data from a survey on 71,929 children and adolescents in 5 province-level regions in China to study the incidence and demographic information of SCT in the Chinese population. Subsequently, the study investigated the comorbidity of ADHD and SCT, and conducted three logistic regressions on the LE and PRB scores to predict whether participants develop symptoms of ADHD or SCT, or neither symptom. 6658 participants were allocated into the SCT group, and the weighted point prevalence of SCT was 9.78%. 36.34% of participants with ADHD (n = 676) were found to demonstrate SCT symptoms, whereas no statistically significant difference was observed in its comorbidity to the three ADHD subtypes (χ2 = 1.668, p > 0.05, Δ = 2). The regression results on the presence or absence of ADHD revealed paternal excessive-interference and rejection, and maternal favoring were associated with ADHD diagnosis, whereas paternal punishment and favoring and maternal emotional warmth was related to the absence of ADHD symptoms. Academic stress and maternal excessive-interference were associated with SCT symptoms, and maternal emotional warmth associated with SCT absence. Concerning the presence of ADHD-only or SCT-only symptoms, LE adaptation was found to relate to SCT-only symptoms, while PRB paternal rejection and maternal favoring were associated with ADHD-only symptoms. While evidencing the high prevalence of SCT in China, our findings supported that although ADHD and SCT were highly comorbid, they may be considered two independent disorders with different risk factors. Specifically, participants with SCT symptoms are more vulnerable to stress from LE and tend to face more maladjustment than ADHD and normally-developing participants, and maternal rearing behaviours are the key factors to SCT symptoms. SCT brings global challenges in its diagnosis and treatment, and the challenge is more severe in a mentally stressful environment. Therefore, stress management and SCT etiology studies are recommended.
A phenomenological model of whole brain dynamics using a network of neural oscillators with power-coupling
Authors: Bandyopadhyay Anirban , Ghosh Sayan , Biswas Dipayan , Chakravarthy V. Srinivasa , S. Bapi Raju 
Published: October 2023

AbstractWe present a general, trainable oscillatory neural network as a large-scale model of brain dynamics. The model has a cascade of two stages - an oscillatory stage and a complex-valued feedforward stage - for modelling the relationship between structural connectivity and functional connectivity from neuroimaging data under resting brain conditions. Earlier works of large-scale brain dynamics that used Hopf oscillators used linear coupling of oscillators. A distinctive feature of the proposed model employs a novel form of coupling known as power coupling. Oscillatory networks based on power coupling can accurately model arbitrary multi-dimensional signals. Training the lateral connections in the oscillator layer is done by a modified form of Hebbian learning, whereas a variation of the complex backpropagation algorithm does training in the second stage. The proposed model can not only model the empirical functional connectivity with remarkable accuracy (correlation coefficient between simulated and empirical functional connectivity- 0.99) but also identify default mode network regions. In addition, we also inspected how structural loss in the brain can cause significant aberration in simulated functional connectivity and functional connectivity dynamics; and how it can be restored with optimized model parameters by an in silico perturbational study.
A protein kinase C α and β inhibitor blunts hyperphagia to halt renal function decline and reduces adiposity in a rat model of obesity-driven type 2 diabetes
Authors: Wang Ju , Casimiro-Garcia Agustin , Johnson Bryce G. , Duffen Jennifer , Cain Michael , Savary Leigh , Wang Stephen , Nambiar Prashant , Lech Matthew , Zhao Shanrong , Xi Li , Zhan Yutian , Olson Jennifer , Stejskal James A. , Lin Hank , Zhang Baohong , Martinez Robert V. , Masek-Hammerman Katherine , Schlerman Franklin J. , Dower Ken 
Published: October 2023

AbstractType 2 diabetes (T2D) and its complications can have debilitating, sometimes fatal consequences for afflicted individuals. The disease can be difficult to control, and therapeutic strategies to prevent T2D-induced tissue and organ damage are needed. Here we describe the results of administering a potent and selective inhibitor of Protein Kinase C (PKC) family members PKCα and PKCβ, Cmpd 1, in the ZSF1 obese rat model of hyperphagia-induced, obesity-driven T2D. Although our initial intent was to evaluate the effect of PKCα/β inhibition on renal damage in this model setting, Cmpd 1 unexpectedly caused a marked reduction in the hyperphagic response of ZSF1 obese animals. This halted renal function decline but did so indirectly and indistinguishably from a pair feeding comparator group. However, above and beyond this food intake effect, Cmpd 1 lowered overall animal body weights, reduced liver vacuolation, and reduced inguinal adipose tissue (iWAT) mass, inflammation, and adipocyte size. Taken together, Cmpd 1 had strong effects on multiple disease parameters in this obesity-driven rodent model of T2D. Further evaluation for potential translation of PKCα/β inhibition to T2D and obesity in humans is warranted.