bluuebunny/crossref_metadata_2025 huggingface dataset:
Future change of summer hypoxia in coastal California Current
Authors: Shi Hui , Buil Mercedes Pozo , Bograd Steven J. , García-Reyes Marisol , Jacox Michael G. , Black Bryan A. , Sydeman William J. , Rykaczewski Ryan R.
Published: October 2023

The occurrences of summer hypoxia in coastal California Current can significantly affect the benthic and pelagic habitat and lead to complex ecosystem changes. Model-simulated hypoxia in this region is strongly spatially heterogeneous, and its future changes show uncertainties depending on the model used. Here, we used an ensemble of the new generation Earth system models to examine the present-day and future changes of summer hypoxia in this region. We applied model-specific thresholds combined with empirical bias adjustments of the dissolved oxygen variance to identify hypoxia. We found that, although simulated dissolved oxygen in the subsurface varies across the models both in mean state and variability, after necessary bias adjustments, the ensemble shows reasonable hypoxia frequency compared with a hindcast in terms of spatial distribution and average frequency in the coastal region. The models project increases in hypoxia frequency under warming, which is in agreement with deoxygenation projected consistently across the models for the coastal California Current. This work demonstrated a practical approach of using the multi-model ensemble for regional studies while presenting methodology limitations and gaps in observations and models to improve these limitations.
Drawing on the project initiators’ perspectives to evaluate TURF implementation in the Kepulauan Seribu Marine National Park: an online Q methodology study
Authors: Furqan Rifki , Schlüter Achim
Published: October 2023

Territorial User Rights for Fisheries (TURF) are established to grant privileged rights exclusively to local fishing communities to manage their stock within a bounded fishing ground. Theoretically, they will improve their sense of ownership which will eventually lead to stewardship and responsibility. In Indonesia, contemporary TURF has been introduced to meet such social outcomes and address the overfishing problems caused by open-access systems. The primary objective of this study was to determine how different project initiators perceive the system’s performance of TURF in Kepulauan Seribu Marine National Park. This study used an online Q methodology to determine what key actors thought of similarities and differences in TURF implementation by developing a concourse based on the original TURF project success elements. The results show that there are two different perspectives on what the essential aspects of TURF succeed in Kepulauan Seribu. The first opinion group appreciated the technical design of TURF, particularly the exclusion mechanism and boundary, which are crucial. A second opinion group argues that the clarity of rights, roles, and responsibilities is fundamental. Both opinion groups agreed that consistent law enforcement is the key to a successful TURF implementation. This study evaluated key stakeholders’ perspectives on co-management programs to identify points of consensus and disagreement that could ultimately help ensure the long-term success of TURF and similar co-management programs.
Mechanisms of tissue degeneration mediated by periostin in spinal degenerative diseases and their implications for pathology and diagnosis: a review
Authors: Yoshihara Tomohito , Morimoto Tadatsugu , Hirata Hirohito , Murayama Masatoshi , Nonaka Toshihiro , Tsukamoto Masatsugu , Toda Yu , Kobayashi Takaomi , Izuhara Kenji , Mawatari Masaaki
Published: October 2023

Periostin (POSTN) serves a dual role as both a matricellular protein and an extracellular matrix (ECM) protein and is widely expressed in various tissues and cells. As an ECM protein, POSTN binds to integrin receptors, transduces signals to cells, enabling cell activation. POSTN has been linked with various diseases, including atopic dermatitis, asthma, and the progression of multiple cancers. Recently, its association with orthopedic diseases, such as osteoporosis, osteoarthritis resulting from cartilage destruction, degenerative diseases of the intervertebral disks, and ligament degenerative diseases, has also become apparent. Furthermore, POSTN has been shown to be a valuable biomarker for understanding the pathophysiology of orthopedic diseases. In addition to serum POSTN, synovial fluid POSTN in joints has been reported to be useful as a biomarker. Risk factors for spinal degenerative diseases include aging, mechanical stress, trauma, genetic predisposition, obesity, and metabolic syndrome, but the cause of spinal degenerative diseases (SDDs) remains unclear. Studies on the pathophysiological effects of POSTN may significantly contribute toward the diagnosis and treatment of spinal degenerative diseases. Therefore, in this review, we aim to examine the mechanisms of tissue degeneration caused by mechanical and inflammatory stresses in the bones, cartilage, intervertebral disks, and ligaments, which are crucial components of the spine, with a focus on POSTN.
Effect of dehydration on the inactivation of Listeria monocytogenes and Salmonella enterica on enoki and wood ear mushrooms
Authors: Salazar Joelle K. , Fay Megan L. , Khouja Bashayer A. , Chavda Nirali J. , Patil Gayatri R. , Ingram David T.
Published: October 2023

Foodborne illness outbreaks in the U.S. associated with consumption of both fresh and dried specialty mushrooms have recently occurred. Dried wood ear mushrooms were implicated in a salmonellosis outbreak in 2020, while fresh enoki mushrooms were associated with two listeriosis outbreaks in 2020 and 2023. These specialty mushrooms are commercially available in both their fresh and dried states. Due to the short shelf life of mushrooms, dehydration is a common method used in both industry and by consumers to extend the shelf life and preserve quality. Therefore, the aim of this study was to evaluate the use of dehydration on the inactivation kinetics of both Listeria monocytogenes and Salmonella enterica on enoki and wood ear mushrooms. Fresh mushrooms were inoculated with four strain cocktails of either L. monocytogenes or S. enterica and dried at ambient conditions for 10 min. Following drying of the inoculum, mushrooms were placed into food dehydrators preheated to 70, 80, or 90°C and treated for up to 24 h. At treatment intervals, mushrooms were removed from the dehydrators for pathogen enumeration. Inactivation kinetics for both pathogens were modeled using the Weibull, log-linear with tail, and log-linear with shoulder models. Pathogen reductions of >4 log CFU/g were achieved on both enoki and wood ear mushrooms during dehydration at 90°C after only 2–4 h. At 70 and 80°C, log reductions of >4 log CFU/g were observed on wood ear mushrooms after 4–8 h. On enoki mushrooms, a tailing effect was observed with residual populations (>2 log CFU/g) of L. monocytogenes and S. enterica remaining even after 24 h of treatment at both 70 and 80°C. This study emphasizes the need for an individualized dehydration strategy for each mushroom type to ensure the effectiveness of dehydration as a process to reduce pathogen populations. Results of this study will aid in informing proper time and temperature combinations for dehydration of specialty mushrooms to ensure product safety.
Mycobacterium tuberculosis Rv0928 protein facilitates macrophage control of mycobacterium infection by promoting mitochondrial intrinsic apoptosis and ROS-mediated inflammation
Authors: Xu Chenling , Yue Yan , Xiong Sidong
Published: October 2023

Macrophages are the main target cells for Mycobacterium tuberculosis (Mtb) infection. Previous studies have shown that Mtb actively upregulates phosphorus transport proteins, such as Rv0928 protein (also known as PstS3), to increase inorganic phosphate uptake and promote their survival under low phosphorus culture conditions in vitro. However, it is unclear whether this upregulation of PstS3 affects the intracellular survival of Mtb, as the latter is also largely dependent on the immune response of infected macrophages. By using Rv0928-overexpressing Mycobacterium smegmatis (Ms::Rv0928), we unexpectedly found that Rv0928 not only increased apoptosis, but also augmented the inflammatory response of infected macrophages. These enhanced cellular defense mechanisms ultimately led to a dramatic reduction in intracellular bacterial load. By investigating the underlying mechanisms, we found that Rv0928 interacted with the macrophage mitochondrial phosphate carrier protein SLC25A3, reduced mitochondrial membrane potential and caused mitochondrial cytochrome c release, which ultimately activated caspase-9-mediated intrinsic apoptosis. In addition, Rv0928 amplified macrophage mitochondrial ROS production, further enhancing pro-inflammatory cytokine production by promoting activation of NF-κB and MAPK pathways. Our study suggested that Mtb Rv0928 up-regulation enhanced the immune defense response of macrophages. These findings may help us to better understand the complex process of mutual adaptation and mutual regulation between Mtb and macrophages during infection.
Fusing the spatial structure of electroencephalogram channels can increase the individualization of the functional connectivity network
Authors: Li Ming , Yang Jun , Tian Wenli , Ju Xiangyu
Published: October 2023

An electroencephalogram (EEG) functional connectivity (FC) network is individualized and plays a significant role in EEG-based person identification. Traditional FC networks are constructed by statistical dependence and correlation between EEG channels, without considering the spatial relationships between the channels. The individual identification algorithm based on traditional FC networks is sensitive to the integrity of channels and crucially relies on signal preprocessing; therefore, finding a new presentation for FC networks may help increase the performance of the identification algorithms. EEG signals are smooth across space owing to the volume conduction effect. Considering such spatial relationships among channels can provide a more accurate representation of FC networks. In this study, we propose an EEG FC network with virtual nodes that combines the spatial relationships and functional connectivity of channels. The comparison results for individual identification show that the novel EEG network is more individualized and achieves an accuracy of 98.64% for data without preprocessing. Furthermore, our algorithm is more robust in reducing the number of channels and can perform well even when a large area of channels is removed.
Integrative analysis reveals a four-gene signature for predicting survival and immunotherapy response in colon cancer patients using bulk and single-cell RNA-seq data
Authors: Chai Ruoyang , Zhao Yajie , Su Zhengjia , Liang Wei
Published: October 2023

Background

Colon cancer (CC) ranks as one of the leading causes of cancer-related mortality globally. Single-cell transcriptome sequencing (scRNA-seq) offers precise gene expression data for distinct cell types. This study aimed to utilize scRNA-seq and bulk transcriptome sequencing (bulk RNA-seq) data from CC samples to develop a novel prognostic model.

Methods

scRNA-seq data was downloaded from the GSE161277 database. R packages including “Seurat”, “Harmony”, and “singleR” were employed to categorize eight major cell types within normal and tumor tissues. By comparing tumor and normal samples, differentially expressed genes (DEGs) across these major cell types were identified. Gene Ontology (GO) enrichment analyses of DEGs for each cell type were conducted using “Metascape”. DEGs-based signature construction involved Cox regression and least absolute shrinkage operator (LASSO) analyses, performed on The Cancer Genome Atlas (TCGA) training cohort. Validation occurred in the GSE39582 and GSE33382 datasets. The expression pattern of prognostic genes was verified using spatial transcriptome sequencing (ST-seq) data. Ultimately, an established prognostic nomogram based on the gene signature and age was established and calibrated. Sensitivity to chemotherapeutic drugs was predicted with the “oncoPredict” R package.

Results

Using scRNA-Seq data, we examined 33,213 cells, categorizing them into eight cell types within normal and tumor samples. GO enrichment analysis revealed various cancer-related pathways across DEGs in these cell types. Among the 55 DEGs identified via univariate Cox regression, four independent prognostic genes emerged: PTPN6, CXCL13, SPINK4, and NPDC1. Expression validation through ST-seq confirmed PTPN6 and CXCL13 predominance in immune cells, while SPINK4 and NPDC1 were relatively epithelial cell-specific. Creating a four-gene prognostic signature, Kaplan-Meier survival analyses emphasized higher risk scores correlating with unfavorable prognoses, confirmed across training and validation cohorts. The risk score emerged as an independent prognostic factor, supported by a reliable nomogram. Intriguingly, drug sensitivity analysis unveiled contrasting anti-cancer drug responses in the two risk groups, suggesting significant clinical implications.

Conclusion

We developed a novel prognostic four-gene risk model, and these genes may act as potential therapeutic targets for CC.
Torsade de pointes associated with long-term antiretroviral drugs in a patient with HIV: a case report
Authors: Mu Xuechun , Duan Yujiao , Xu Qiuhua , Wang Sa , Gao Guiju , Han Ning , Zhao Hongxin
Published: October 2023

With the improving life expectancy of patients with human immunodeficiency virus (HIV), there is an increasing health concern of potential toxicity and drug interactions of long-term antiretroviral therapies. We describe a female patient with HIV, who was admitted to the emergency department following an unexplained loss of consciousness. This patient had been on antiretroviral therapy comprising tenofovir disoproxil fumarate, lamivudine, and lopinavir/ritonavir for 12 years. Coincidentally, she had been prescribed terfenadine for urticaria recently. After 3 days on this medication, she suddenly lost her consciousness, with a distinctive electrocardiogram alteration characterized by QT prolongation and torsade de pointes. This symptom recurred several times over a span of 2 days. We postulate that the primary instigator was an elevated concentration of terfenadine, which can be traced back to her antiretroviral therapy regimen comprising lopinavir/ritonavir. This drug is known to impede the metabolism of cytochrome P450 3A4 substrates and consequently elevate terfenadine concentrations.
Exploring challenges in later-life relationships: a qualitative study of the queries posted on counselling websites
Authors: Svačinka Stanislav , Ševčíková Anna , Gottfried Jaroslav
Published: October 2023

Introduction

Divorce rates among individuals aged 50 and above are on the rise. Given the greater life expectancy compared to previous generations, this is an issue that is affecting an increasing number of people. Therefore, it warrants an inquiry into the challenges these individuals encounter in their intimate relationships.

Methods

This study analyzed 225 relationship-related queries posted on Czech counselling websites to identify the strains and stressor patterns that older adults face in their relationships. The queries were limited to those that concerned themes and problems related to partnerships, were posted by one of the partners aged 60 or over, and were analyzed using inductive thematic analysis.

Results

Four main relationship issues were identified: infidelity and jealousy; relationship estrangement and cooling; undesirable changes in personality; and illness and somatic issues. Additionally, three recurring themes were identified that made the problems more demanding and that were specific to older age: lack of norms for relationships in that age group, absence of resources to tackle the issues, and personal calculation for Time Spent and Time Remaining.

Discussion

The research found that the types of problems encountered by older adults were similar to those experienced by younger individuals. However, the way these problems were perceived and processed was influenced by specific aspects of aging, such as societal expectations, available coping resources, and the perception of time. The findings also highlighted the challenges faced by older adults in terms of relationship norms, sexual functioning, and personality changes.
Indirect adjusted comparison of 6-month clinical outcomes between esketamine nasal spray and other real-world polypharmacy treatment strategies for treatment resistant depression: results from the ICEBERG study
Authors: Oliveira-Maia Albino J. , Rive Benoit , Morrens Joachim , Godinov Yordan , Cabrieto Jedelyn , Perualila Nolen , Mulhern-Haughey Siobhán
Published: October 2023

Background

The efficacy of esketamine nasal spray (NS) as a rapid-acting agent for treatment resistant depression (TRD) was demonstrated in comparisons with placebo, when both were given in addition to a newly initiated selective serotonin reuptake inhibitor (SSRI)/serotonin norepinephrine reuptake inhibitor (SNRI). How esketamine NS compares with commonly used real-world (RW) polypharmacy treatment strategies is not known.

Method

ICEBERG was an adjusted indirect treatment comparison that analysed data from SUSTAIN-2 (NCT02497287; clinicaltrials.gov), a long-term, open-label study of esketamine NS plus SSRI/SNRI, and the European Observational TRD Cohort (EOTC; NCT03373253; clinicaltrials.gov), an observational study of routine clinical practice. Data were compared between patients receiving esketamine NS (SUSTAIN-2) and those from the EOTC treated with polypharmacy treatment strategies, either combination or augmentation. Analyses were adjusted for potential confounders, using rescaled average treatment effect among treated estimates. Threshold analyses were conducted to assess potential impact of unmeasured confounders on the robustness of analyses where esketamine NS was found to be significantly superior. Sensitivity analyses were used to understand the impact of analysis method selection and data handling.

Results

Esketamine NS treatment resulted in a higher probability of 6-month response (49.7% [95% confidence interval (CI) 45.6–53.9]) and remission (33.6% [95% CI 29.7–37.6]) versus RW polypharmacy (26.8% [95% CI 21.0–32.5] and 19.4%, [95% CI 14.2–24.6], respectively). Relative risk calculations showed esketamine NS was 1.859 (95% CI 1.474–2.345; p < 0.0001) times as likely to result in response and 1.735 (1.297–2.322; p = 0.0002) times as likely to result in remission versus RW polypharmacy at 6 months. Threshold and extensive sensitivity analyses supported that analyses of esketamine NS superiority were robust.

Conclusion

ICEBERG supports esketamine NS being superior to current RW individualized polypharmacy strategies, including augmentation, with benefits extending beyond acute use, to improved chance of 6-month response and remission. While unobserved confounding factors may certainly impact results of an indirect comparison, threshold analysis supported a low likelihood of this affecting the conclusions.

To view an animated summary of this publication, please click on the Supplementary video.
“The kids get haggled over”: how institutional practices contribute to segregation in elementary schools
Authors: Ramos Lobato Isabel , Goldbach Alina , Hanhörster Heike
Published: October 2023

School segregation is a key topic in urban, educational and inequality research. While previous studies have mainly focused on the effects of both parental school choice and residential segregation patterns on the composition of schools, we draw attention to institutional players steering access to elementary schools as one important dimension of institutional discrimination. Combining expert interviews with school principals and the local schools department with a quantitative survey among parents, we scrutinize the interplay between institutional structures and practices and parental school choice strategies. We identify three dimensions of institutional discrimination as being particularly relevant for school access, and thus for school segregation and inequality: a school’s guidelines and strategic objectives in dealing with segregation, the enrollment process, and a school’s profiling and information policies. These factors prove to be rather subtle, yet crucial facets of institutional discrimination, co-producing and perpetuating spatial inequalities.
Adolescents Hospitalized for Psychiatric Illness: Caregiver Perspectives on Challenges
Authors: D’Angelo Alexia , Ofosu Antonia , Preyde Michèle
Published: October 2023

Adolescents with psychiatric illness severe enough to be hospitalized experience many challenges that are also experienced by their caregivers and other family members. The purpose of this study was to explore the challenges experienced by these adolescents and their families from the perspective of the caregivers. A cross-sectional survey with open-ended questions and standardized measures was administered to caregivers while their children were in hospital. Caregivers (n = 24) reported significant challenges related to the psychological problems their adolescents were experiencing, and additional burdens that influenced the family context in which the adolescents were developing. Adolescents with psychiatric illness may be contributing to and developing in stressful family contexts. Implications include the need for interventions for caregivers alongside the psychiatric care provided for their children and specialized supports for their complex situation.
A Study of the Impact of Mobile Payment on the Enhancement of Consumption Structure and Pattern of Chinese Rural Households
Authors: Liu Jie , Li Zhengyin , Hu Xiangdong
Published: October 2023

Amidst China’s economic transition towards high-quality development, the latent potential of the rural consumer market has been significantly unlocked, rendering the evolution of rural household consumption patterns a pivotal area of research. In this paper, we empirically investigate the influence of mobile payment on the transformation of consumption patterns within Chinese rural households, utilizing data from the China Household Finance Survey 2017 and China Household Finance Survey 2019. This study’s findings reveal the following key points: Firstly, mobile payment significantly contributes to the enhancement of the consumption structure within rural households. Secondly, the mechanistic analysis demonstrates that mobile payment plays a pivotal role in alleviating mobility constraints and optimizing the consumption environment, thereby facilitating the improvement of rural households’ consumption patterns. Lastly, the heterogeneity analysis indicates that mobile payment has a more pronounced effect on the upgrading of consumption structures among rural households with older household heads and higher education levels. In light of these findings, this paper suggests advancing the development of mobile payment infrastructure in rural areas, enhancing the proliferation of smartphones in rural regions, and bolstering financial education initiatives within rural communities.
Low Airspeed Impacts on Tom Turkey Response to Moderate Heat Stress
Authors: Uemura Derek , Regmi Prafulla , Grimes Jesse , Wang-Li Lingjuan , Shah Sanjay
Published: October 2023

Heat stress is a concern for turkeys in naturally ventilated houses. Chamber and room studies were used to assess heat stress at moderate temperatures (<25 °C) and low airspeeds on grown tom turkeys. In the chamber study, four ventilation rates × two temperatures (thermal comfort and thermal stress, 11 °C above thermal comfort) were applied to 13- to 19-week birds. Very small differences in airspeeds among the four treatments masked subcutaneous, cloacal, and infrared (IR) temperature differences at both temperatures. In the room study, four ventilation rates (0.07 m3·min−1·kg−1 or 100%, 75%, 50%, and 30% or Control) were applied to 21-week toms housed at <23 °C. The Control treatment had significantly higher whole-body and head temperatures vs. the other treatments. Only 100% had higher weight gain vs. 50%; hematology was unaffected by treatment. Higher ventilation rates reduced heat stress due to lower room temperatures, not airspeed differences, which were very low. The low-cost IR camera detected a heat stress difference ≥ 0.8 °C, corresponding to wind chill of 0.8 °C due to an airspeed of 0.8 m·s−1 vs. still air on the USDA broiler wind chill curve. Machine vision combined with IR thermography could alleviate real-time poultry heat stress.
Aquatic and Terrestrial Invertebrate Welfare
Authors: Lewbart Gregory A. , Zachariah Trevor T.
Published: October 2023

Invertebrates are a diverse group of animals that make up the majority of the animal kingdom and encompass a wide array of species with varying adaptations and characteristics. Invertebrates are found in nearly all of the world’s habitats, including aquatic, marine, and terrestrial environments. There are many misconceptions about invertebrate sentience, welfare requirements, the need for environmental enrichment, and overall care and husbandry for this amazing group of animals. This review addresses these topics and more for a select group of invertebrates with biomedical, economical, display, and human companionship importance.
Ethical Considerations for Echinoderms: New Initiatives in Welfare
Authors: Crespi-Abril Augusto César , Rubilar Tamara
Published: October 2023

This paper explores the ethical considerations surrounding research on echinoderms, a group of invertebrates that has recently garnered attention in the scientific community. The importance of responsible animal handling and the need for an ethical framework that encompasses echinoderms are emphasized. The 3Rs principle, advocating for the replacement of conscious living vertebrates with non-sentient material in research, is discussed as a guiding tool in current animal research practices. As invertebrates are generally classified as non-sentient animals, the replacement dimension tends to favor them as prevalent models in experimental research. While it currently lacks the means to assess the mental states of invertebrates, there is undeniable evidence of social behavior in many species, suggesting that a lack of interactions with these organisms could potentially adversely affect their wellbeing. In the last few years, considerable progress has been made in developing an ethical framework that takes invertebrates into account, particularly cephalopods, crustaceans, and echinoderms. In this context, we discuss the development of a broader conceptual framework of 5Rs that includes responsibility and respect, which may guide practices ensuring welfare in echinoderms, even in the absence of any particular normative.
Early Colonization of the Intestinal Microbiome of Neonatal Piglets Is Influenced by the Maternal Microbiome
Authors: Lim Jin-A , Cha Jihye , Choi Soyoung , Kim Jae-Hwan , Kim Dahye
Published: October 2023

The intestinal microbiome plays a crucial role in animal health and growth by interacting with the host, inhibiting pathogenic microbial colonization, and regulating immunity. This study investigated dynamic changes in the fecal microbial composition of piglets from birth through weaning and the relationship between the piglet fecal microbiome and sows. Feces, skin, neonatal oral cavity, and vaginal samples were collected from eight sows and sixty-three piglets, and 16S genome sequencing was performed. The results revealed that Firmicutes, Bacteroidetes, and Proteobacteria dominated the piglet microbiome in the early stages, and Firmicutes and Bacteroidetes were crucial for maintaining a balance in the intestinal microbiome during nursing. The abundance of Christensenellaceae_R-7_group, Succinivibrio, and Prevotella increased in weaned piglets fed solid feed. Analysis of the microbiome from sows to piglets indicated a shift in the microbiome colonizing piglet intestines, which became a significant constituent of the piglet intestinal microbiome. This study supports the theory that the neonatal intestinal microbiome is vertically transmitted from the mother. Further research is required to integrate factors related to sows, piglets, and their environments to gain a better understanding of the early establishment of the intestinal microbiome in piglets.
Assessing Disease Risks in Wildlife Translocation Projects: A Comprehensive Review of Disease Incidents
Authors: Warne Regina Kate , Chaber Anne-Lise
Published: October 2023

Although translocation projects have been instrumental in the supplementation or restoration of some wild populations, they also carry a large risk of disease transmission to native and translocated animals. This study systematically reviewed conservation translocation projects to identify projects that met the criteria for a translocation significant disease incursion (TSDI), whereby the translocation resulted in negative population growth rates or the failure of populations to grow due to an infectious disease—either in the native or translocated species. In doing so, risk factors for these incidents could be identified. Analysis of the resulting 30 TSDIs demonstrated that there was equal representation of TSDIs using wild-caught and captive-bred animals. Additionally, the type of pathogen predisposed in a TSDI was more likely a result of the animal group translocated (e.g., fungal pathogens were more likely to be detected in amphibian translocations) and it was nearly five times more likely for a disease to be encountered by a translocated species than for a disease to be introduced to a native population. However, there are numerous project-specific predisposing factors for TSDIs, and therefore it is essential that future translocation projects conduct thorough disease risk analysis as well as report their outcomes for the benefit of their own and future translocations.
RepVGG-SimAM: An Efficient Bad Image Classification Method Based on RepVGG with Simple Parameter-Free Attention Module
Authors: Cai Zengyu , Qiao Xinyang , Zhang Jianwei , Feng Yuan , Hu Xinhua , Jiang Nan
Published: October 2023

With the rapid development of Internet technology, the number of global Internet users is rapidly increasing, and the scale of the Internet is also expanding. The huge Internet system has accelerated the spread of bad information, including bad images. Bad images reflect the vulgar culture of the Internet. They will not only pollute the Internet environment and impact the core culture of society but also endanger the physical and mental health of young people. In addition, some criminals use bad images to induce users to download software containing computer viruses, which also greatly endanger the security of cyberspace. Cyberspace governance faces enormous challenges. Most existing methods for classifying bad images face problems such as low classification accuracy and long inference times, and these limitations are not conducive to effectively curbing the spread of bad images and reducing their harm. To address this issue, this paper proposes a classification method (RepVGG-SimAM) based on RepVGG and a simple parameter-free attention mechanism (SimAM). This method uses RepVGG as the backbone network and embeds the SimAM attention mechanism in the network so that the neural network can obtain more effective information and suppress useless information. We used pornographic images publicly disclosed by data scientist Alexander Kim and violent images collected from the internet to construct the dataset for our experiment. The experimental results prove that the classification accuracy of the method proposed in this paper can reach 94.5% for bad images, that the false positive rate of bad images is only 4.3%, and that the inference speed is doubled compared with the ResNet101 network. Our proposed method can effectively identify bad images and provide efficient and powerful support for cyberspace governance.
A Statistical Approach on Estimations of Climate Change Indices by Monthly Instead of Daily Data
Authors: Hasel Kristofer , Bügelmayer-Blaschek Marianne , Formayer Herbert
Published: October 2023

Climate change indices (CCI) profoundly contribute to understanding the climate and its change. They are used to present climate change in an easy-to-understand and tangible way, thus, facilitating climate communication. Most of these indices are calculated by daily data but there are also many valuable data sets that consist solely of a monthly temporal frequency. In this paper, we present a method that enables the estimation of specific CCIs from monthly instead of daily data, allowing the expression and examination of data sets consisting solely of monthly parameters through climate change indices. Therefore, we used the ERA5 Land data supplemented by a CMIP6 ssp5-8.5 climate projection to train multiple regression models with different regression functions and selected the best fitting for every grid point. Using a climate projection as a supplement in training the regression functions accounts for climate change and empowers the method’s application in future climate periods. The method includes a simple bias adjustment (delta change). Its output is regridded to ERA5 Land’s 0.1∘ grid, adapting it to the local environment and offering better application in areas with complex terrain using coarse data. Furthermore, the presented method and its regression coefficients can be created from any data set, allowing an even higher spatial resolution than ERA5 Land’s. While the method performs best for the temperature-related indices in warm temperate climates, it works uniformly well for the precipitation-related index maximum consecutive dry days on a global scale.
Machine Learning Dynamic Ensemble Methods for Solar Irradiance and Wind Speed Predictions
Authors: Vidal Bezerra Francisco Diego , Pinto Marinho Felipe , Costa Rocha Paulo Alexandre , Oliveira Santos Victor , Van Griensven Thé Jesse , Gharabaghi Bahram
Published: October 2023

This paper proposes to analyze the performance increase in the forecasting of solar irradiance and wind speed by implementing a dynamic ensemble architecture for intra-hour horizon ranging from 10 to 60 min for a 10 min time step data. Global horizontal irradiance (GHI) and wind speed were computed using four standalone forecasting models (random forest, k-nearest neighbors, support vector regression, and elastic net) to compare their performance against two dynamic ensemble methods, windowing and arbitrating. The standalone models and the dynamic ensemble methods were evaluated using the error metrics RMSE, MAE, R2, and MAPE. This work’s findings showcased that the windowing dynamic ensemble method was the best-performing architecture when compared to the other evaluated models. For both cases of wind speed and solar irradiance forecasting, the ensemble windowing model reached the best error values in terms of RMSE for all the assessed forecasting horizons. Using this approach, the wind speed forecasting gain was 0.56% when compared with the second-best forecasting model, whereas the gain for GHI prediction was 1.96%, considering the RMSE metric. The development of an ensemble model able to provide accurate and precise estimations can be implemented in real-time forecasting applications, helping the evaluation of wind and solar farm operation.
Roles of Air–Sea Interactions in the Predictability of Typhoon Mawar and Remote Heavy-Rainfall Events after Five Days
Authors: Wada Akiyoshi
Published: October 2023

This study investigated the relationship between the predicted track of Typhoon Mawar (2023) and the quasi-stationary front along the southern coast of Japan where heavy rainfall occurred. Also, the role of ocean coupling was explored by using global model predictions and numerical simulations conducted by a regional atmosphere–wave–ocean coupled model. The track predictions by four major global models showed that the prediction errors became significantly larger after the recurvature. One of the global models could reasonably predict both the track and the location of the front, even after five days. The results of numerical simulations of which the initial and boundary conditions were based on the successful predictions suggest that ocean coupling contributes to the improvement of central pressure simulations compared with fixed oceanic conditions. More northward translation of Mawar after the recurvature simulated by the coupled model could be explained by the separation of the inner-core vortex into two parts in the upper and lower troposphere. However, the predictability of the Subtropical High was more important in determining not only the track but also environmental southerly flow over the moisture road formed between Mawar and the Subtropical High and in accurately predicting the location of the front.
Challenges in the Digital Transformation of Ports
Authors: Almeida Fernando
Published: October 2023

Digital transformation plays a significant role in modernizing and improving the efficiency of ports around the world. However, digitalization also brings a set of challenges that ports must face. They have to respond to several unique challenges because of the complexity of their operations and the varying demands of stakeholders. This study seeks to identify and summarize the challenges of digital transformation processes in ports. For this purpose, the World Ports Sustainability Program database was used. The findings revealed 74 digitalization initiatives carried out by ports, which makes it possible to recognize 7 dimensions and 32 sub-dimensions of challenges to the digital transformation process. Among the identified dimensions are port infrastructure, the interconnection between various systems, the port organization model, regulation, security and privacy, market evolution, and the establishment of partnerships to implement these projects. The results of this study are relevant to mitigate the risks of the digitalization process in ports and respond to market needs that demand greater transparency and visibility of their operations.
Circulating Tumour DNA Guided Adjuvant Chemotherapy Decision Making in Stage II Colon Cancer—A Clinical Vignette Study
Authors: To Yat Hang , Gibbs Peter , Tie Jeanne , Loree Jonathan , Glyn Tamara , Degeling Koen
Published: October 2023

Circulating tumour DNA (ctDNA) is a promising biomarker that may better identify stage II colon cancer (CC) patients who will benefit from adjuvant chemotherapy (AC) compared to standard clinicopathological parameters. The DYNAMIC study demonstrated that ctDNA-informed treatment decreased AC utilisation without compromising recurrence free survival, but medical oncologists’ willingness to utilise ctDNA results to inform AC decision is unknown. Medical oncologists from Australia, Canada and New Zealand were presented with clinical vignettes for stage II CC comprised of two variables with three levels each (age: ≤50, 52–69, ≥70 years; and clinicopathological risk of recurrence: low, intermediate, high) and were queried about ctDNA testing and treatment recommendations based on results. Sixty-four colorectal oncologists completed at least one vignette (all vignettes, n = 59). The majority of oncologist were Australian (70%; Canada: n = 13; New Zealand: n = 6) and had over 10 years of clinical experience (n = 41; 64%). The proportion of oncologists requesting ctDNA testing exceeded 80% for all vignettes, except for age ≥ 70 and low-risk disease (63%). Following a positive ctDNA result, the proportion of oncologists recommending AC (p < 0.01) and recommending oxaliplatin-based doublet (p < 0.01) increased in all vignettes. Following a negative result, the proportion recommending AC decreased in all intermediate and high-risk vignettes (p < 0.01).
CD47: The Next Frontier in Immune Checkpoint Blockade for Non-Small Cell Lung Cancer
Authors: Lau Asa P. Y. , Khavkine Binstock Sharon S. , Thu Kelsie L.
Published: October 2023

The success of PD-1/PD-L1-targeted therapy in lung cancer has resulted in great enthusiasm for additional immunotherapies in development to elicit similar survival benefits, particularly in patients who do not respond to or are ineligible for PD-1 blockade. CD47 is an immunosuppressive molecule that binds SIRPα on antigen-presenting cells to regulate an innate immune checkpoint that blocks phagocytosis and subsequent activation of adaptive tumor immunity. In lung cancer, CD47 expression is associated with poor survival and tumors with EGFR mutations, which do not typically respond to PD-1 blockade. Given its prognostic relevance, its role in facilitating immune escape, and the number of agents currently in clinical development, CD47 blockade represents a promising next-generation immunotherapy for lung cancer. In this review, we briefly summarize how tumors disrupt the cancer immunity cycle to facilitate immune evasion and their exploitation of immune checkpoints like the CD47–SIRPα axis. We also discuss approved immune checkpoint inhibitors and strategies for targeting CD47 that are currently being investigated. Finally, we review the literature supporting CD47 as a promising immunotherapeutic target in lung cancer and offer our perspective on key obstacles that must be overcome to establish CD47 blockade as the next standard of care for lung cancer therapy.
Pan-Cancer Analysis and Experimental Validation of SOX4 as a Potential Diagnosis, Prognosis, and Immunotherapy Biomarker
Authors: Deng Xinna , Wang Yashu , Guo Hao , Wang Qian , Rao Shuting , Wu Haijiang
Published: October 2023

Introduction: SOX4 plays an important role in tumorigenesis and cancer progression. The role of SOX4 in pan-cancer and its underlying molecular mechanism in liver hepatocellular carcinoma (LIHC) are not fully understood. In this study, a comprehensive analysis and experimental validation were performed to explore the function of SOX4 across tumor types. Methods: Raw data in regard to SOX4 expression in malignant tumors were downloaded from the TCGA and GTEx databases. The expression levels, prognostic values, genetic mutation, and DNA promoter methylation of SOX4 across tumor types were explored via systematic bioinformatics analysis. The ceRNA regulatory network, immune characteristics, and prognostic models were analyzed in LIHC. Finally, we conducted in vitro experiments including Western blotting, cell proliferative assay, trypan blue staining, and fluorescence microscopy to further explore the function of SOX4 in LIHC. Results: SOX4 expression was significantly upregulated in 24 tumor types. SOX4 expression level was strongly associated with unfavorable prognoses, genetic mutations, and DNA methylation levels across different tumor types. Especially in LIHC, LINC00152/hsa-miR-139-3p/SOX4 was identified as a crucial ceRNA network. Moreover, this study also provides insight into the roles of SOX4 expression in immune cell infiltration, macrophage polarization, immune subtype, molecular subtype, and immunomodulators, as well as the tumor immune microenvironment (TIME)-related prognosis, in LIHC. The study established six favorable prognostic models to predict LIHC prognosis based on the SOX4-associated genes. Finally, lenvatinib treatment can increase the expression of SOX4 in hepatocellular carcinoma cells and lead to drug resistance. Silencing SOX4 can effectively eliminate the drug resistance caused by lenvatinib treatment and inhibit the proliferation of cancer cells.Conclusions: This study highlights that SOX4 may serve as a promising therapeutic target for tumor treatment.
Clinical-Genomic Risk Group Classification of Suspicious Lesions on Prostate Multiparametric-MRI
Authors: Stoyanova Radka , Zavala-Romero Olmo , Kwon Deukwoo , Breto Adrian L. , Xu Isaac R. , Algohary Ahmad , Alhusseini Mohammad , Gaston Sandra M. , Castillo Patricia , Kryvenko Oleksandr N. , Davicioni Elai , Nahar Bruno , Spieler Benjamin , Abramowitz Matthew C. , Dal Pra Alan , Parekh Dipen J. , Punnen Sanoj , Pollack Alan
Published: October 2023

The utilization of multi-parametric MRI (mpMRI) in clinical decisions regarding prostate cancer patients’ management has recently increased. After biopsy, clinicians can assess risk using National Comprehensive Cancer Network (NCCN) risk stratification schema and commercially available genomic classifiers, such as Decipher. We built radiomics-based models to predict lesions/patients at low risk prior to biopsy based on an established three-tier clinical-genomic classification system. Radiomic features were extracted from regions of positive biopsies and Normally Appearing Tissues (NAT) on T2-weighted and Diffusion-weighted Imaging. Using only clinical information available prior to biopsy, five models for predicting low-risk lesions/patients were evaluated, based on: 1: Clinical variables; 2: Lesion-based radiomic features; 3: Lesion and NAT radiomics; 4: Clinical and lesion-based radiomics; and 5: Clinical, lesion and NAT radiomic features. Eighty-three mpMRI exams from 78 men were analyzed. Models 1 and 2 performed similarly (Area under the receiver operating characteristic curve were 0.835 and 0.838, respectively), but radiomics significantly improved the lesion-based performance of the model in a subset analysis of patients with a negative Digital Rectal Exam (DRE). Adding normal tissue radiomics significantly improved the performance in all cases. Similar patterns were observed on patient-level models. To the best of our knowledge, this is the first study to demonstrate that machine learning radiomics-based models can predict patients’ risk using combined clinical-genomic classification.
Critical Roles of SRC-3 in the Development and Progression of Breast Cancer, Rendering It a Prospective Clinical Target
Authors: Varisli Lokman , Dancik Garrett M. , Tolan Veysel , Vlahopoulos Spiros
Published: October 2023

Breast cancer (BCa) is the most frequently diagnosed malignant tumor in women and is also one of the leading causes of cancer-related death. Most breast tumors are hormone-dependent and estrogen signaling plays a critical role in promoting the survival and malignant behaviors of these cells. Estrogen signaling involves ligand-activated cytoplasmic estrogen receptors that translocate to the nucleus with various co-regulators, such as steroid receptor co-activator (SRC) family members, and bind to the promoters of target genes and regulate their expression. SRC-3 is a member of this family that interacts with, and enhances, the transcriptional activity of the ligand activated estrogen receptor. Although SRC-3 has important roles in normal homeostasis and developmental processes, it has been shown to be amplified and overexpressed in breast cancer and to promote malignancy. The malignancy-promoting potential of SRC-3 is diverse and involves both promoting malignant behavior of tumor cells and creating a tumor microenvironment that has an immunosuppressive phenotype. SRC-3 also inhibits the recruitment of tumor-infiltrating lymphocytes with effector function and promotes stemness. Furthermore, SRC-3 is also involved in the development of resistance to hormone therapy and immunotherapy during breast cancer treatment. The versatility of SRC-3 in promoting breast cancer malignancy in this way makes it a good target, and methodical targeting of SRC-3 probably will be important for the success of breast cancer treatment.