bluuebunny/crossref_metadata_2025_split huggingface dataset:
Machine-learning-based ground sink susceptibility evaluation using underground pipeline data in Korean urban area
Authors: Park Jun Hwan , Kang Junggoo , Kang Jaemo , Mun Duhwan 
Published: December 2022

AbstractGround subsidence caused by natural factors, including groundwater, has been extensively researched. However, there have been few studies on ground sink caused mainly by artifacts, including underground pipelines in urban areas. This paper proposes a method of predicting ground sink susceptibility caused by underground pipelines. Underground pipeline data, drilling data, and 77 points of ground sink occurrence were collected for five 1 × 1 km urban areas. Furthermore, three ground sink conditioning factors (GSCFs) (pipe deterioration, diameter, and length) were identified by correlation analysis. Pipe deterioration showed the highest correlation with ground sink occurrence, followed by pipe length and pipe diameter in that order. Next, four machine learning methods [multinomial logistic regression (MLR), decision tree (DT) classifier, random forest (RF) classifier, and gradient boosting (GB) classifier] were applied. The results show that GB classifier had the highest accuracy of 0.7432, whereas the accuracy of RF classifier was 0.7407; thus, GB classifier was not significantly more accurate. RF classifier showed the highest reliability (0.84, 0.70, 0.87) according to the area under the receiver operating characteristic (AUC–ROC) curve. Ground sink susceptibility maps (GSSMs) of the five regions in an urban area were created using RF classifier, which performed the best overall.
Functional connectivity and amplitude of low-frequency fluctuations changes in people with complete subacute and chronic spinal cord injury
Authors: Vallesi Vanessa , Richter Johannes K. , Hunkeler Nadine , Abramovic Mihael , Hashagen Claus , Christiaanse Ernst , Shetty Ganesh , Verma Rajeev K. , Berger Markus , Frotzler Angela , Eisenlohr Heidrun , Eriks-Hoogland Inge , Scheel-Sailer Anke , Michels Lars , Wyss Patrik O. 
Published: December 2022

AbstractAfter spinal cord injury (SCI), reorganization processes and changes in brain connectivity occur. Besides the sensorimotor cortex, the subcortical areas are strongly involved in motion and executive control. This exploratory study focusses on the cerebellum and vermis. Resting-state functional magnetic resonance imaging (fMRI) was performed. Between-group differences were computed using analysis of covariance and post-hoc tests for the seed-based connectivity measure with vermis and cerebellum as regions of interest. Twenty participants with complete SCI (five subacute SCI, 15 with chronic SCI) and 14 healthy controls (HC) were included. Functional connectivity (FC) was lower in all subjects with SCI compared with HC in vermis IX, right superior frontal gyrus (pFDR = 0.008) and right lateral occipital cortex (pFDR = 0.036). In addition, functional connectivity was lower in participants with chronic SCI compared with subacute SCI in bilateral cerebellar crus I, left precentral- and middle frontal gyrus (pFDR = 0.001). Furthermore, higher amplitude of low-frequency fluctuations (ALFF) was found in the left thalamus in individuals with subacute SCI (pFDR = 0.002). Reduced FC in SCI indicates adaptation with associated deficit in sensory and motor function. The increased ALFF in subacute SCI might reflect reorganization processes in the subacute phase.
Psychiatric symptoms and emotional impact of the COVID-19 pandemic on Italian adolescents during the third lockdown: a cross-sectional cohort study
Authors: Mensi Martina Maria , Iacopelli Marta , Orlandi Marika , Capone Luca , Rogantini Chiara , Vecchio Arianna , Casini Erica , Borgatti Renato 
Published: December 2022

AbstractA previous study showed that about 80% of Italian adolescents reported isolated symptoms of acute or post-traumatic stress during the first lockdown in Italy. We proposed a new questionnaire to investigate the presence of symptoms related to anxiety, panic, depression, eating disorders, sleep disorders, social withdrawal, stress disorders, psychotic symptoms, anti-conservative thoughts, and self-harming acts aggravated by COVID-19 restrictions and possible differences between males and females. 500 adolescents (12–18 years) completed an online survey created using validated scales. 41% of the respondents felt more stress than during the first lockdown. 1.85% showed suprathreshold symptoms for post-traumatic stress disorder and 21% showed isolated symptoms of acute or post-traumatic stress due to the pandemic. In addition, we found psychotic symptoms (16%), panic (25% suprathreshold), anxiety (46.8% suprathreshold), depression (18.7% suprathreshold), eating-related symptoms (51%), sleep difficulties (57%), a tendency to social withdrawal after the pandemic (15%), suicidal ideation (30%), and self-harming behavior (9%). Furthermore, girls showed a more severe level of distress. The results show a high prevalence of symptoms because of the COVID-19 pandemic and confirm the need for easy access to support and treatment service to help contain the bio-psycho-social risk factors prompted by the current pandemic and promptly and effectively manage the consequences.
Comprehensive sequence and expression profile analysis of the phosphate transporter gene family in soybean
Authors: Wei Xiaoshuang , Fu Yu , Yu Renjie , Wu Lei , Wu Zhihai , Tian Ping , Li Siyuan , Yang Xue , Yang Meiying 
Published: December 2022

AbstractThe family of phosphate transporters (PHTs) mediates the uptake and translocation of Pi inside the plants. However, little is known about transporters in soybean. Therefore, Searched the Genome Database for Soybean, 57 GmPHTs family members were identified in soybean, Phylogenetic analysis suggested that members of the PHTs gene family can be divided into six clades. Collinearity analysis revealed that most of the GmPHT genes shared syntenic relationships with PHTs members in Arabidopsis thaliana and that large segment duplication played a major driving force for GmPHTs evolution in addition to tandem duplication. Further analysis of the promoter revealed that light-responsive elements and abiotic stress-responsive elements were widely distributed within the promoter regions of GmPHT genes. Based on RNA-seq data, GmPHTs showed different expression patterns in roots and leaves of soybean treated with long-term low phosphorus and short-term low phosphorus, in addition, the expression levels of GmPHT genes can be regulated by drought stresses, it was implied that the induced expression of GmPHTs could promote phosphorus uptake and transport in soybean and thus adapt to low phosphorus and drought stress, which is the first step dissection of Pi transport system and probably refers to new roles of PHTs genes in soybean.
Fiber-based 3D nano-printed holography with individually phase-engineered remote points
Authors: Plidschun Malte , Zeisberger Matthias , Kim Jisoo , Wieduwilt Torsten , Schmidt Markus A. 
Published: December 2022

AbstractThe generation of tailored light fields with spatially controlled intensity and phase distribution is essential in many areas of science and application, while creating such patterns remotely has recently defined a key challenge. Here, we present a fiber-compatible concept for the remote generation of complex multi-foci three-dimensional intensity patterns with adjusted relative phases between individual foci. By extending the well-known Huygens principle, we demonstrate, in simulations and experiments, that our interference-based approach enables controlling of both intensity and phase of individual focal points in an array of spots distributed in all three spatial directions. Holograms were implemented using 3D nano-printing on planar substrates and optical fibers, showing excellent agreement between design and implemented structures. In addition to planar substrates, holograms were also generated on modified single-mode fibers, creating intensity distributions consisting of about 200 individual foci distributed over multiple image planes. The presented scheme yields an innovative pathway for phase-controlled 3D digital holography over remote distances, yielding an enormous potential application in fields such as quantum technology, life sciences, bioanalytics and telecommunications. Overall, all fields requiring precise excitation of higher-order optical resonances, including nanophotonics, fiber optics and waveguide technology, will benefit from the concept.
Acetylcholine deficit causes dysfunctional inhibitory control in an aging-dependent manner
Authors: Sabandal Paul Rafael , Saldes Erick Benjamin , Han Kyung-An 
Published: December 2022

AbstractInhibitory control is a key executive function that limits unnecessary thoughts and actions, enabling an organism to appropriately execute goal-driven behaviors. The efficiency of this inhibitory capacity declines with normal aging or in neurodegenerative dementias similar to memory or other cognitive functions. Acetylcholine signaling is crucial for executive function and also diminishes with aging. Acetylcholine’s contribution to the aging- or dementia-related decline in inhibitory control, however, remains elusive. We addressed this in Drosophila using a Go/No-Go task that measures inhibition capacity. Here, we report that inhibition capacity declines with aging in wild-type flies, which is mitigated by lessening acetylcholine breakdown and augmented by reducing acetylcholine biosynthesis. We identified the mushroom body (MB) γ neurons as a chief neural site for acetylcholine’s contribution to the aging-associated inhibitory control deficit. In addition, we found that the MB output neurons MBON-γ2α’1 having dendrites at the MB γ2 and α’1 lobes and axons projecting to the superior medial protocerebrum and the crepine is critical for sustained movement suppression per se. This study reveals, for the first time, the central role of acetylcholine in the aging-associated loss of inhibitory control and provides a framework for further mechanistic studies.
PHEVIR: an artificial intelligence algorithm that predicts the molecular role of pathogens in complex human diseases
Authors: Zhou Hongyi , Astore Courtney , Skolnick Jeffrey 
Published: December 2022

AbstractInfectious diseases are known to cause a wide variety of post-infection complications. However, it’s been challenging to identify which diseases are most associated with a given pathogen infection. Using the recently developed LeMeDISCO approach that predicts comorbid diseases associated with a given set of putative mode of action (MOA) proteins and pathogen-human protein interactomes, we developed PHEVIR, an algorithm which predicts the corresponding human disease comorbidities of 312 viruses and 57 bacteria. These predictions provide an understanding of the molecular bases of complications and means of identifying appropriate drug targets to treat them. As an illustration of its power, PHEVIR is applied to identify putative driver pathogens and corresponding human MOA proteins for Type 2 diabetes, atherosclerosis, Alzheimer’s disease, and inflammatory bowel disease. Additionally, we explore the origins of the oncogenicity/oncolyticity of certain pathogens and the relationship between heart disease and influenza. The full PHEVIR database is available at https://sites.gatech.edu/cssb/phevir/.
Agent-based model using GPS analysis for infection spread and inhibition mechanism of SARS-CoV-2 in Tokyo
Authors: Murakami Taishu , Sakuragi Shunsuke , Deguchi Hiroshi , Nakata Masaru 
Published: December 2022

AbstractAnalyzing the SARS-CoV-2 pandemic outbreak based on actual data while reflecting the characteristics of the real city provides beneficial information for taking reasonable infection control measures in the future. We demonstrate agent-based modeling for Tokyo based on GPS information and official national statistics and perform a spatiotemporal analysis of the infection situation in Tokyo. As a result of the simulation during the first wave of SARS-CoV-2 in Tokyo using real GPS data, the infection occurred in the service industry, such as restaurants, in the city center, and then the infected people brought back the virus to the residential area; the infection spread in each area in Tokyo. This phenomenon clarifies that the spread of infection can be curbed by suppressing going out or strengthening infection prevention measures in service facilities. It was shown that pandemic measures in Tokyo could be achieved not only by strong control, such as the lockdown of cities, but also by thorough infection prevention measures in service facilities, which explains the curb phenomena in real Tokyo.
Human attachment site preferences of ticks parasitizing in New York
Authors: Hart Charles , Schad Laura A. , Bhaskar Jahnavi Reddy , Reynolds Erin S. , Morley Christopher P. , Thangamani Saravanan 
Published: December 2022

AbstractTicks transmit several arthropod-borne pathogens in New York State. The primary human-biting ticks in this region are Ixodes scapularis, Amblyomma americanum, and Dermacentor variabilis. Body regions where tick bites human vary depending on the tick species and life stage, and clothing worn by the host. A community tick submission system was used to acquire information about bite-site location prior to pathogen testing to understand species and life stage-specific body-segment preferences. These data resulted in the identification of species-specific preferences for location, with D. variabilis preferentially biting the head and neck and A. americanum preferring the thighs, groin, and abdomen. Ixodes scapularis was found across the body, although it showed a significant life stage difference with adults preferring the head, midsection, and groin, while nymphs/larvae preferred the extremities. Infection with Borrelia burgdorferi resulted in a significant change in attachment site. This provides an assessment of which body region ticks of the most common species in New York are likely to be found.
Urinalysis of individuals with renal hyperfiltration using ATR-FTIR spectroscopy
Authors: Kurultak İlhan , Sarigul Neslihan , Kodal Nil Su , Korkmaz Filiz 
Published: December 2022

AbstractAbnormal increased glomerular filtration rate (GFR), otherwise known as renal hyperfiltration (RHf), is associated with an increased risk of chronic kidney disease and cardiovascular mortality. Although it is not considered as a disease alone in medicine today, early detection of RHf is essential to reducing risk in a timely manner. However, detecting RHf is a challenge since it does not have a practical biochemical marker that can be followed or quantified. In this study, we tested the ability of ATR-FTIR spectroscopy to distinguish 17 individuals with RHf (hyperfiltraters; RHf (+)), from 20 who have normal GFR (normofiltraters; RHf(−)), using urine samples. Spectra collected from hyperfiltraters were significantly different from the control group at positions 1621, 1390, 1346, 933 and 783/cm. Intensity changes at these positions could be followed directly from the absorbance spectra without the need for pre-processing. They were tentatively attributed to urea, citrate, creatinine, phosphate groups, and uric acid, respectively. Using principal component analysis (PCA), major peaks of the second derivative forms for the classification of two groups were determined. Peaks at 1540, 1492, 1390, 1200, 1000 and 840/cm were significantly different between the two groups. Statistical analysis showed that the spectra of normofiltraters are similar; however, those of hyperfiltraters show diversity at multiple positions that can be observed both from the absorbance spectra and the second derivative profiles. This observation implies that RHf can simultaneously affect the excretion of many substances, and that a spectroscopic analysis of urine can be used as a rapid and non-invasive pre-screening tool.
MFG-E8 has guiding significance for the prognosis and treatment of sepsis
Authors: Wu Wei , Wang Jing , Chen Jingdi , Lu Jiaming , Lao Yaojia , Huang Kai , Lin Jun 
Published: December 2022

AbstractSepsis remains a significant clinical challenge. Ferroptosis is involved in the pathogenesis of sepsis. Ferroptosis is associated with oxidative stress, and excessive oxidative stress is suppressed by milk fat globule epidermal growth factor 8 (MFG-E8) under various conditions. However, the role of MFG-E8 in sepsis-induced ferroptosis and oxidative stress is still unclear. First, we collected blood samples from patients with sepsis and detected the expression of serum MFG-E8. Then, the relationship between serum concentrations of MFG-E8 and disease severity was detected. Finally, the effects of MFG-E8 treatment on ferroptosis and oxidative stress in the livers of septic mice were determined. The expression of serum MFG-E8 in healthy subjects was notably higher than that in septic patients. In addition, when nonsurvivors and survivors of sepsis were compared, MFG-E8 levels were considerably lower in the former. The ROC curve for MFG-E8 was also generated. The area under the curve for MFG-E8 was 0.768 (95% confidence interval [CI] 0.627–0.909, p = 0.003). The patients were separated into two groups based on the MFG-E8 cut-off value of 3.86 ng/mL. According to the Kaplan‒Meier survival analysis, patients with low MFG-E8 levels had a significantly decreased 28-day survival rate compared with patients with high MFG-E8 levels. High MFG-E8 levels were substantially related to a decreased risk of death, as demonstrated by the Cox proportional hazard model that we utilized. In addition, compared with sham mice, septic mice exhibited liver and kidney damage, and MFG-E8 may have protective effects. The survival study indicated that MFG-E8 could effectively improve the survival rate of septic mice. Treatment with MFG-E8 suppresses oxidative stress and ferroptosis in the livers of septic mice. Serum MFG-E8 levels are lower in septic patients and are negatively related to disease severity. Treatment with MFG-E8 suppresses oxidative stress and ferroptosis in the livers of septic mice, contributing to significantly improved survival in septic mice. These findings showed that MFG-E8 could be a new sepsis predictive biomarker. MFG-E8 may have therapeutic potential in the treatment of sepsis.
Diminished muscle integrity in patients with fibrodysplasia ossificans progressiva assessed with at-home electrical impedance myography
Authors: Farid Alexander , Golden Emma , Robicheau Sara , Hu Alice , Cheung Kin , Yu Paul B. , Rutkove Seward B. , Upadhyay Jaymin 
Published: December 2022

AbstractFibrodysplasia ossificans progressiva (FOP) is an ultra-rare disorder involving skeletal dysplasia and heterotopic ossification (HO) of muscle and connective tissue. We aimed to define a novel biomarker in FOP that enables reliable assessment of musculoskeletal tissue integrity. Considering logistical difficulties that FOP patients often face, our goal was to identify an at-home biomarker technique. Electrical impedance myography (EIM) is a non-invasive, portable method that can inform on muscle health. 15 FOP patients (age 10–52) and 13 healthy controls were assessed. Using EIM, multiple muscle groups were characterized per participant in a 45-min period. The Cumulative Analogue Joint Involvement Scale (CAJIS) was implemented to determine mobility burden severity. We additionally evaluated physical activity levels via a Patient-Reported Outcomes Measurement Information System (PROMIS)-based questionnaire. Relative to controls, FOP patients demonstrated significantly lower regional and whole-body phase values at 50 kHz and 100 kHz, indicating more diseased muscle tissue. Lower whole-body phase and reactance values, and higher resistance values, were associated with greater FOP burden (CAJIS score range: 4–30) and lower physical activity levels at 50 kHz and 100 kHz. This study points to the potential utility of EIM as a clinical biomarker tool capable of characterizing muscle integrity in FOP.
Developing current procedural terminology codes that describe the work performed by machines
Authors: Frank Richard A. , Jarrin Robert , Pritzker Jordan , Abramoff Michael D. , Repka Michael X. , Baird Pat D. , Marlene Grenon S. , Mahoney Megan Ruth , Mattison John E. , Silva Ezequiel 
Published: December 2022

AbstractThe “Taxonomy of Artificial Intelligence for Medical Services and Procedures” became part of the Current Procedural Terminology (CPT®) code set effective January 1, 2022. It provides a framework for discrete and differentiable CPT codes which; are consistent with the features of the devices’ output, characterize interaction between the device and the physician or other qualified health care professional, and foster appropriate payment. Descriptors include “Assistive”, “Augmentative”, and “Autonomous”. As software increasingly augments the provision of medical services the taxonomy will foster consistent language in coding enabling patient, provider, and payer access to the benefits of innovation.
Climate, currents and species traits contribute to early stages of marine species redistribution
Authors: García Molinos Jorge , Hunt Heather L. , Green Madeline E. , Champion Curtis , Hartog Jason R. , Pecl Gretta T. 
Published: December 2022

AbstractAnthropogenic climate change is causing a rapid redistribution of life on Earth, particularly in the ocean, with profound implications for humans. Yet warming-driven range shifts are known to be influenced by a variety of factors whose combined effects are still little understood. Here, we use scientist-verified out-of-range observations from a national citizen-science initiative to assess the combined effect of long-term warming, climate extremes (i.e., heatwaves and cold spells), ocean currents, and species traits on early stages of marine range extensions in two warming ‘hotspot’ regions of southern Australia. We find effects of warming to be contingent upon complex interactions with the strength of ocean currents and their mutual directional agreement, as well as species traits. Our study represents the most comprehensive account to date of factors driving early stages of marine species redistributions, providing important evidence for the assessment of the vulnerability of marine species distributions to climate change.
Volumetric imaging of fast cellular dynamics with deep learning enhanced bioluminescence microscopy
Authors: Morales-Curiel Luis Felipe , Gonzalez Adriana Carolina , Castro-Olvera Gustavo , Lin Li-Chun , El-Quessny Malak , Porta-de-la-Riva Montserrat , Severino Jacqueline , Morera Laura Battle , Venturini Valeria , Ruprecht Verena , Ramallo Diego , Loza-Alvarez Pablo , Krieg Michael 
Published: December 2022

AbstractBioluminescence microscopy is an appealing alternative to fluorescence microscopy, because it does not depend on external illumination, and consequently does neither produce spurious background autofluorescence, nor perturb intrinsically photosensitive processes in living cells and animals. The low photon emission of known luciferases, however, demands long exposure times that are prohibitive for imaging fast biological dynamics. To increase the versatility of bioluminescence microscopy, we present an improved low-light microscope in combination with deep learning methods to image extremely photon-starved samples enabling subsecond exposures for timelapse and volumetric imaging. We apply our method to image subcellular dynamics in mouse embryonic stem cells, epithelial morphology during zebrafish development, and DAF-16 FoxO transcription factor shuttling from the cytoplasm to the nucleus under external stress. Finally, we concatenate neural networks for denoising and light-field deconvolution to resolve intracellular calcium dynamics in three dimensions of freely movingCaenorhabditis elegans.