bluuebunny/crossref_metadata_2025 huggingface dataset:
Developing a theory-driven framework for a web-based intervention to improve transition in childhood cancer survivors: a protocol of realist synthesis
Authors: Ma Jun , Li Jing , Huang Weihong , Wang Honghong
Published: November 2023

Backgrounds and purpose

Childhood cancer survivors (CCSs) who transition through adolescence and enter young adulthood may suffer psychological, cognitive, social, fertility, and sexual issues and concerns. There is an urgent need for comprehensive intervention strategies to improve the transition of CCSs. Web-based technologies are gaining momentum as a new mechanism to provide healthcare and education for adolescents. However, previous frameworks have been limited in their effectiveness in explaining web-based interventions.

This realist synthesis aims to synthesise current evidence on transition of CCSs to develop a framework for web-based interventions. The framework can foster understanding of the integrity of web-based intervention implementation chain, examine which mechanistic factors will be triggered by web-based interventions, note and examine the flows, blockages and points of contention in the implementation, to refine web-based interventions.

Method and analysis

A realist synthesis that adheres to the Realist and Meta-narrative Evidence Syntheses-Evolving Standard will be used. Studies will be identified through PubMed, Web of Science, EMBASE, PsycINFO, CINAHL, Ovid and Cochrane Library from the period of January 2005 to May 2023. We will also search the reference lists provided in relevant studies and reviews. Articles will be screened based on two principles: (1) Relevance: does the research address the initial programme theory? (2) Rigour: whether a particular inference drawn by the original researcher has sufficient weight to make a methodologically credible contribution to the test of the initial programme theory. No restrictions regarding the design or language of publication will be considered.

Ethics and dissemination

As a review, ethical approval is not required. The results from this study will be presented at international conferences and disseminated through peer-reviewed publications. Patients and the public will be involved in the dissemination plans.
Unveiling the effects of living standards on diabetes and hypertension with the mediating role of overweight and obesity: a cross-sectional study in Bangladesh
Authors: Sen Kanchan Kumar , Jamee Ahsan Rahman , Islam Ummay Nayeema , Bari Wasimul
Published: November 2023

Objective

The purpose of the study was to ascertain how the standard of living is associated with the likelihood of developing diabetes and hypertension directly as well as indirectly through overweight and obesity.

Study design

The study used 2017–2018 Bangladesh Demographic and Health Survey data. It examined the household living standard (LSD) as the main factor, and body mass index (BMI) as a mediator. Outcomes included diabetes status, hypertension status and their co-occurrence. Structural equation modelling with logistic regression and bootstrapping were used for mediation analysis and computing bias-corrected SEs.

Setting

The research was carried out in Bangladesh and included both male and female adults.

Participants

The study encompassed a total of 11 961 adults (5124 males and 6837 females) aged 18 years or older.

Results

Among the participants, 10.3% had diabetes, 28.6% had hypertension and 4.9% had both conditions. The prevalence of diabetes, hypertension or both conditions was 18.5%, 33.5% and 9.7%, respectively, among those with a high LSD. Regression analysis demonstrated that individuals with high LSD had significantly elevated risks of these conditions compared with those with low LSD: 133% higher odds for diabetes (OR 2.22; 95% CI 1.97 to 2.76), 25% higher odds for hypertension (OR 1.25; 95% CI 1.10 to 1.42) and 148% higher odds for both conditions (OR 2.48; 95% CI 1.96 to 3.14). Moreover, the indirect effects of high LSD through obesity surpassed its direct effects for developing diabetes, hypertension or both conditions.

Conclusion

This study emphasises that with the enhancement of LSD, individuals often experience weight gain, resulting in elevated BMI levels. This cascade effect significantly amplifies the risks of diabetes, hypertension or both conditions. To counteract this concerning trajectory, policy interventions and targeted awareness campaigns are imperative. These efforts must prioritise the promotion of heightened physical activity and the mitigation of the overweight/obesity surge associated with rising LSD.
Mapping the scientific literature on obstetrical and perinatal health among sexual and gender minoritised (SGM) childbearing people and their infants: a scoping review protocol
Authors: Huang Aimee K , Soled Kodiak Ray Sung , Chen Laura , Schulte Alison R , Hall Mary-Frances E , McLaughlin Claire , Srinivasan Sanjana , Jahan Aava B , Mita Carol , Charlton Brittany M
Published: November 2023

Introduction

Sexual and gender minoritised (SGM) populations are disproportionately impacted by multilevel risk factors for obstetrical and perinatal outcomes, including structural (eg, stigma, discrimination, access to care) and individual risk factors (eg, partner violence, poor mental health, substance use). Emerging evidence shows SGM childbearing people have worse obstetrical outcomes and their infants have worse perinatal outcomes, when compared with their cisgender and heterosexual counterparts; this emerging evidence necessitates a comprehensive examination of existing literature on obstetrical and perinatal health among SGM people. The goal of this scoping review is to comprehensively map the extent, range and nature of scientific literature on obstetrical and perinatal physical health outcomes among SGM populations and their infants. We aim to summarise findings from existing literature, potentially informing clinical guidelines on perinatal care, as well as highlighting knowledge gaps and providing directions for future research.

Methods and analysis

We will follow the Joanna Briggs Institute (JBI) scoping review framework and report findings according to the PRISMA Extension for Scoping Reviews (PRISMA-ScR) guidelines. We will conduct a broad systematic search in Medline/PubMed, Embase, CINAHL and Web of Science Core Collection. Eligible studies will include peer-reviewed, empirical, English-language publications pertaining to obstetrical and perinatal physical health outcomes of SGM people or their infants. No temporal or geographical limitations will be applied to the search. Studies conducted in all settings will be considered. Records will be managed, screened and extracted by two independent reviewers. Study characteristics, key findings and research gaps will be presented in tables and summarised narratively.

Ethics and dissemination

Ethical approval is not required as primary data will not be collected. The findings of this scoping review will be disseminated through a peer-reviewed journal and conference presentations.

Protocol registration

Open Science Frameworkhttps://osf.io/6fg4a/.
Tumor cell-induced macrophage senescence plays a pivotal role in tumor initiation followed by stable growth in immunocompetent condition
Authors: Wada Haruka , Otsuka Ryo , Germeraad Wilfred T V , Murata Tomoki , Kondo Toru , Seino Ken-ichiro
Published: November 2023

Background

The cancer stem cell theory proposes that tumor formation in vivo is driven only by specific tumor-initiating cells having stemness; however, clinical trials conducted to test drugs that target the tumor stemness provided unsatisfactory results thus far. Recent studies showed clear involvement of immunity in tumors; however, the requirements of tumor-initiation followed by stable growth in immunocompetent individuals remain largely unknown.

Methods

To clarify this, we used two similarly induced glioblastoma lines, 8B and 9G. They were both established by overexpression of an oncogenic H-RasL61 in p53-deficient neural stem cells. In immunocompromised animals in an orthotopic transplantation model using 1000 cells, both show tumor-forming potential. On the other hand, although in immunocompetent animals, 8B shows similar tumor-forming potential but that of 9G’s are very poor. This suggests that 8B cells are tumor-initiating cells in immunocompetent animals. Therefore, we hypothesized that the differences in the interaction properties of 8B and 9G with immune cells could be used to identify the factors responsible for its tumor forming potential in immunocompetent animals and performed analysis.

Results

Different from 9G, 8B cells induced senescence-like state of macrophages around tumors. We investigated the senescence-inducing factor of macrophages by 8B cells and found that it was interleukin 6. Such senescence-like macrophages produced Arginase-1, an immunosuppressive molecule known to contribute to T-cell hyporesponsiveness. The senescence-like macrophages highly expressed CD38, a nicotinamide adenine dinucleotide (NAD) glycohydrolase associated with NAD shortage in senescent cells. The addition of nicotinamide mononucleotide (NMN), an NAD precursor, in vitro inhibited to the induction of macrophage senescence-like phenotype and inhibited Arginase-1 expression resulting in retaining T-cell function. Moreover, exogenous in vivo administration of NMN after tumor inoculation inhibited tumor-initiation followed by stable growth in the immunocompetent mouse tumor model.

Conclusions

We identified one of the requirements for tumor-initiating cells in immunocompetent animals. In addition, we have shown that tumor growth can be inhibited by externally administered NMN against macrophage senescence-like state that occurs in the very early stages of tumor-initiating cell development. This therapy targeting the immunosuppressive environment formed by macrophage senescence-like state is expected to be a novel promising cancer therapeutic strategy.
De novo variants inKCNJ3are associated with early-onset epilepsy
Authors: Li Juan , Mei Shiyue , Mao Xiao , Wan Lily , Wang Hua , Xiao Bo , Song Yanmin , Gu Weiyue , Liu Yan , Long Lili
Published: November 2023

Background

KCNJ3encodes a subunit of G-protein-coupled inwardly rectifying potassium channels, which are important for cellular excitability and inhibitory neurotransmission. However, the genetic basis ofKCNJ3in epilepsy has not been determined. This study aimed to identify the pathogenicKCNJ3variants in patients with epilepsy.

Methods

Trio exome sequencing was performed to determine potential variants of epilepsy. Individuals withKCNJ3variants were recruited for this study. Detailed clinical information and genetic data were obtained and systematically reviewed. Whole-cell patch-clamp recordings were performed to evaluate the functional consequences of the identified variants.

Results

Two de novo missense variants (c.998T>C (p.Leu333Ser) and c.938G>A (p. Arg313Gln)) inKCNJ3were identified in two unrelated families with epilepsy. The variants were absent from the gnomAD database and were assumed to be damaging or probably damaging using multiple bioinformatics tools. They were both located in the C‐terminal domain. The amino acid residues were highly conserved among various species. Clinically, the seizures occurred at a young age and were under control after combined treatment. Electrophysiological analysis revealed that theKCNJ3Leu333Ser and Arg313Gln variants significantly compromised the current activities and exhibited loss-of-function (LOF) effects.

Conclusion

Our findings suggest that de novo LOF variants inKCNJ3are associated with early-onset epilepsy. Genetic testing ofKCNJ3in patients with epilepsy may serve as a strategy for precision medicine.
Causal effects of time-varying body size on selected autoimmune disorders: a life course Mendelian randomisation study
Authors: Freuer Dennis , Meisinger Christa
Published: November 2023

Background

Based on Barker’s hypothesis, some studies investigated the associations between birth weight and several disorders. Apart from issues with statistical power and well-known shortcomings of the observational study design, there are no studies accounting for changes in weight-related body size over the life course regarding rheumatoid arthritis, psoriasis, psoriatic arthritis and multiple sclerosis.

Methods

Using genetic information of up to 806 834 participants, this study investigated the associations between time-varying weight-related body size from birth to adulthood and the mentioned autoimmune diseases. Performing Mendelian randomisation (MR), the radial inverse-variance weighted approach was used iteratively in primary analyses. Robustness of the results was confirmed in several sensitivity analyses. Potential time-dependent mediation mechanisms were identified through network-clustering and assessed using multivariable MR.

Results

Genetically predicted birth weight (fetal effect) was positively associated with rheumatoid arthritis (OR 1.44; 95% CI 1.17 to 1.77; Padj=0.005) but not with psoriasis, psoriatic arthritis or multiple sclerosis. This association was found to be mediated by body mass index (BMI) in adulthood (OR 1.45; 95% CI 1.14 to 1.84; Padj=0.019) rather than childhood. The direct effect of birth weight attenuated (OR 1.19; 95% CI 0.88 to 1.62); Padj=1) after adjustment for time-varying BMI.

Conclusion

Increased birth weight appears to be a risk factor for later manifestation of rheumatoid arthritis due to both fetal genetic components and high BMI persisting into adulthood. Approaches to prevent and minimise the risk of rheumatoid arthritis could include preventing obesity in adults with high birth weight.
A BLIND IMAGE INPAINTING MODEL INTEGRATED WITH RATIONAL FRACTAL INTERPOLATION INFORMATION
Authors: LI ZUN , CHEN AIMIN , SHEN XIAOMENG , MIAO TONGJUN
Published: November 2023

Aiming to solve the problem of blind image inpainting, this study proposed a blind image inpainting model integrated with rational fractal interpolation information. First, wavelet decomposition and closed operations were adopted to obtain masks and transform blind inpainting into non-blind inpainting. Then, on the basis of similar structural groups, rational fractal interpolation functions were introduced to complete the restoration. On the one hand, this model can sufficiently express the texture features of the image with high fidelity. On the other hand, it can better represent the structural features of the image, avoid serrated edges, enhance the restoration effect, and approximate the original image. The experimental results show that the restoration effect of this model can reserve texture details and ensure edges without distortion, possessing great practical application value.
PREDICTING THE ELECTRICAL CONDUCTIVITY OF DUAL-POROSITY MEDIA WITH FRACTAL THEORY
Authors: ZHU HUAIZHI , GAO JUN , XIAO BOQI , ZHANG YIDAN , WANG YANBIN , WANG PEILONG , TU BILIANG , LONG GONGBO
Published: November 2023

The microspatial structure of porous media affects the electrical properties of reservoir rocks significantly. In this work, a dual-porosity model is established to investigate the electrical properties of porous media, in which tree-like networks and capillary channels represent fractures and pores. By using fractal theory, we established an analytical equation for the conductivity of water-saturated dual-porosity media. The analytical equation, devoid of any empirical constants, expresses the electrical properties of the porous media as a function of some structural parameters ([Formula: see text], [Formula: see text], [Formula: see text], [Formula: see text], [Formula: see text], [Formula: see text], [Formula: see text], [Formula: see text], [Formula: see text], [Formula: see text], [Formula: see text], [Formula: see text]. We also examine the impact of various matrix structural parameters on conductivity. It is found that increasing the length of mother channel ([Formula: see text], length ratio ([Formula: see text], the number of branching layers ([Formula: see text], and tortuosity fractal dimension ([Formula: see text] leads to a decrease in conductivity, whereas increasing the diameter of mother channel ([Formula: see text], diameter ratio ([Formula: see text], the cross-sectional porosity ([Formula: see text], [Formula: see text], and the channel bifurcation number ([Formula: see text] enhances conductivity. Furthermore, we validated this analytical model by comparing it with the experimental data available, and the results demonstrate good agreement. This research has proposed an advanced conductivity model that enables us to better understand the underlying physical mechanisms of the electrical properties in porous media.
A MATHEMATICAL FRAMEWORK TO CHARACTERIZE COMPLEXITY ASSEMBLY IN FRACTAL RIVER NETWORKS
Authors: JIN YI , ZHAO JINGYAN , DONG JIABIN , ZHENG JUNLING , ZHANG QING , LIU DANDAN , SONG HUIBO
Published: November 2023

As a multi-scale system featuring fractal hierarchical branching structure, the quantitative characterization of natural river networks is of fundamental significance for the assessment of the hydrological and ecological issues. However, as already evidenced, the fractal behavior cannot be uniquely inverted by fractal dimension, which induces a challenge in accurately describing the arbitrary scale-invariance properties in natural river networks. In this work, as per fractal topography theory, an open mathematical framework for the description of arbitrary fractal river networks is proposed by clarifying the assembly mechanisms of complexity types (i.e. the original and behavioral complexities) in a river network. On this basis, a general algorithm for the characterization of complexities is developed, and the effects of the original and behavioral complexities on the structure of a river network are systematically explored. The results indicate that the original complexity determines the tortuosity and spatial coverage of a river network, and the behavioral complexity dominates the river patterns, heterogeneity, and scale-invariance properties. Our investigation lays a foundation for assessing and predicting accurately the effect on environments, ecology and humans from river networks.
PROPERTIES AND 2α̃-FRACTAL WEIGHTED PARAMETRIC INEQUALITIES FOR THE FRACTAL (m,h)-PREINVEX MAPPINGS
Authors: ZHANG XIAOHUA , ZHOU YUNXIU , DU TINGSONG
Published: November 2023

The fractal [Formula: see text]-preinvex mappings are put forward and their properties are investigated firstly. Meanwhile, some fractal Hermite–Hadamard-type ([Formula: see text]) and Fejér–Hermite–Hadamard-type ([Formula: see text]) inequalities concerning [Formula: see text]-preinvexity are popularized. Then, two weighted parameterized [Formula: see text]-fractal identities are proposed, which involve twice the local fractional differentiable mappings. Based upon these identities and taking advantage of the fractal [Formula: see text]-preinvex mappings as well as [Formula: see text]-Lipschitzian mappings, a range of error estimations are deduced in the fractal domains. Finally, certain fractal inequalities with relation to the weighted formula and random variable are correspondingly presented as applications.
Consumer preferences on quality of supermarket services in organized retailing: Structural equation modeling approach
Authors: Deepika D. E. Vijaya , Kannan N.
Published: November 2023

Retailing in India has come a long way. The rapid development and advancement in technology and consumer needs have made the retail sector hold a pivotal role in our economy. Organized retailing has brought in more satisfied and convenient shopping practices among consumers. The major segments covered in organized or modern retailing include store-based and nonstore-based. The organized retail market has a lot of scope and opportunities due to value for money, changing consumer shopping patterns, rural market, enhanced middle-class consumers, growth and awareness of consumerism, technological impact, media and social media apprising and increased income ( Suresh , 2019 ). This study focuses on the supermarket segment of organized retailing, where the major daily groceries and monthly household needs of consumers are extensively delivered. Even though the major online grocery stores and applications have become a part of consumers’ lives, supermarkets and hypermarkets are enduring and growing due to the constant support offered by consumers of all categories. Despite the pandemic hindrances, the organized retailing sectors have registered strong growth and performance. This study aims to analyze consumer preferences for supermarkets and the reasons behind choosing supermarkets. The data were collected from 128 respondents who were shoppers of various supermarkets with reference to Chennai city. The data were collected through a self-administered survey using a structured questionnaire. The analysis of data was performed using descriptive statistics and SPSS AMOS. Structural equation modeling (SEM) was used in order to evaluate the association between variables used in the study.
Multi-element geochemical analyses on ultrafine soils in Western Australia – towards establishing abundance ranges in mineral exploration settings
Authors: Henne Anicia , Noble Ryan R. P. , Williams Morgan
Published: November 2023

In this study, we present summary statistics for multi-element soil geochemistry across Western Australia based on over 74 000 soil samples using the UltraFine+
®
method that extracts and analyses the clay (<2 

μ

m) fraction of a soil sample. This method is a critical advancement for the detection of mobile element signatures for soil geochemical mineral exploration surveys in cover. However, existing estimates of background metal abundances acquired with other methods and on different sample media do not readily provide context for these analyses, as recovery from the fine fraction differs to that of whole-sample analysis. We therefore present herein the geochemical results for 52 elements, including precious, base and critical metals, as well as commonly associated pathfinder elements for Western Australian samples analysed during several research projects by the Commonwealth Scientific and Industrial Research Organisation (CSIRO). This dataset is separated by tectonic unit into the Eastern Goldfields Superterrane and the Youanmi Terrane in the Yilgarn Craton, the Pilbara Craton and Sylvania Inlier, the Gascoyne, Lamboo and Aileron Provinces, and the Bryah and Earaheedy Basins to provide exploration-relevant context in these areas. We discuss some of the general trends observed for 12 of these elements, as well as some considerations for the use of these data in comparison to other geochemical soil surveys and with regards to mineral exploration settings. The samples presented in this study are not evenly distributed across Western Australia and limited information is available to correlate whether lithology at depth is mineralized or barren. However, in the absence of other systematic datasets using the <2 

μ

m-size fraction, these data present a suitable first-pass resource of element abundance ranges in areas of mineral exploration interest using the UltraFine+
®
method in some of the mineral-endowed areas of Western Australia.

Supplementary material:
Supplementary data A, UltraFine+
®
Soil Sampling Guide; B, UltraFine+
®
analyses results for available samples in Western Australia; C, Summary statistics of UltraFine+
®
analyses by simplified tectonic units; Supplementary Figure 1, Comparison of elemental mean values and uncertainties for ultrafine reference materials QC 320 and QC 422; Supplementary Figure 2, Violin plots of Ni, Cd, Mg and Au by simplified tectonic unit; Supplementary Figure 3, Location of soil samples in the Eastern Goldfields Superterrane analysed via UltraFine+
®
, and those collected as part of the NGSA and GSWA regolith programme; Supplementary Figure 4, Comparison of W, Al, Mg and Ca results from UltraFine+
®
, NGSA and GSWA analyses in the Eastern Goldfields Superterrane are available at
https://doi.org/10.6084/m9.figshare.c.6919933
PTM-APIRec: Leveraging Pre-trained Models of Source Code in API Recommendation
Authors: Li Zhihao , Li Chuanyi , Tang Ze , Huang Wanhong , Ge Jidong , Luo Bin , Ng Vincent , Wang Ting , Hu Yucheng , Zhang Xiaopeng
Published: November 2023

Recommending APIs is a practical and essential feature of IDEs. Improving the accuracy of API recommendations is an effective way to improve coding efficiency. With the success of deep learning in software engineering, the state-of-the-art (SOTA) performance of API recommendation is also achieved by deep-learning-based approaches. However, existing SOTAs either only consider the API sequences in the code snippets or rely on complex operations for extracting hand-crafted features, all of which have potential risks in under-encoding the input code snippets and further resulting in sub-optimal recommendation performance. To this end, this article proposes to utilize the code understanding ability of existing general code
P
re-
T
raining
M
odels to fully encode the input code snippet to improve the accuracy of
API
Rec
ommendation, namely,
PTM-APIRec
. To ensure that the code semantics of the input are fully understood and the API recommended actually exists, we use separate vocabularies for the input code snippet and the APIs to be predicted. The experimental results on the JDK and Android datasets show that PTM-APIRec surpasses existing approaches. Besides, an effective way to improve the performance of PTM-APIRec is to enhance the pre-trained model with more pre-training data (which is easier to obtain than API recommendation datasets).
QoS-pro: A QoS-enhanced Transaction Processing Framework for Shared SSDs
Authors: Fan Hao , Ye Yiliang , Ibrahim Shadi , Huang Zhuo , Li Xingru , Xue Weibin , Wu Song , Yu Chen , Shi Xuanhua , Jin Hai
Published: November 2023

Solid State Drives
(SSDs) are widely used in data-intensive scenarios due to their high performance and decreasing cost. However, in shared environments, concurrent workloads can interfere with each other, leading to a violation of
Quality of Service
(QoS). While QoS mechanisms like fairness guarantees and latency constraints have been integrated into SSDs, existing transaction processing frameworks offer limited QoS guarantees and can significantly degrade overall performance in a shared environment. The reason is that the internal components of an SSD, originally designed to exploit parallelism, struggle to coordinate effectively when QoS mechanisms are applied to them.

This article proposes a novel
QoS
-enhanced transaction
pro
cessing framework, called QoS-pro, which enhances QoS guarantees for concurrent workloads while maintaining high parallelism for SSDs. QoS-pro achieves this by redesigning transaction processing procedures to fully exploit the parallelism of shared SSDs and enhancing QoS-oriented transaction translation and scheduling with parallelism features in mind. In terms of fairness guarantees, QoS-pro outperforms state-of-the-art methods by achieving 96% fairness improvement and 64% maximum latency reduction. QoS-pro also shows almost no loss in throughput when compared with parallelism-oriented methods. Additionally, QoS-pro triggers the fewest
Garbage Collection
(GC) operations and minimally affects concurrently running workloads during GC operations.
Viewpoint Disentangling and Generation for Unsupervised Object Re-ID
Authors: Li Zongyi , Shi Yuxuan , Ling Hefei , Chen Jiazhong , Liu Boyuan , Wang Runsheng , Zhao Chengxin
Published: November 2023

Unsupervised object Re-ID aims to learn discriminative identity features from a fully unlabeled dataset to solve the open-class re-identification problem. Satisfying results have been achieved in existing unsupervised Re-ID methods, primarily trained with pseudo-labels created by feature clustering. However, the viewpoint variation of objects is the key challenge, introducing noisy labels in the clustering process. To address this problem, a novel viewpoint disentangling and generation framework (VDG) is proposed to learn viewpoint-invariant ID features, including a disentangling and generation module, as well as a contrastive learning module. First, we design an ID encoder to map the viewpoint and identity features into the latent space. Second, a generator is used to disentangle view features and synthesize images with different orientations. Especially, the well-trained encoder serves as a pre-trained feature extractor in the contrastive learning module. Third, a viewpoint-aware loss and a class-level loss are integrated to facilitate contrastive learning between original and novel views. The generation of novel view images and the application of viewpoint-aware contrastive loss mutually assist model learning viewpoint-invariant ID features. Extensive experiments on Market-1501, DukeMTMC, MSMT17, and VeRi-776 demonstrate the effectiveness of the proposed VDG framework, as well as its superiority over the existing state-of-the-art approaches. The VDG model also demonstrates high quality in the image generation tasks.
Next-Generation Plant-Based Foods: Challenges and Opportunities
Authors: McClements David Julian , Grossmann Lutz
Published: November 2023

Owing to environmental, ethical, health, and safety concerns, there has been considerable interest in replacing traditional animal-sourced foods like meat, seafood, egg, and dairy products with next-generation plant-based analogs that accurately mimic their properties. Numerous plant-based foods have already been successfully introduced to the market, but there are still several challenges that must be overcome before they are adopted by more consumers. In this article, we review the current status of the science behind the development of next-generation plant-based foods and highlight areas where further research is needed to improve their quality, increase their variety, and reduce their cost, including improving ingredient performance, developing innovative processing methods, establishing structure–function relationships, and improving nutritional profiles.
Physiological Functions of the Ubiquitin Ligases Nedd4-1 and Nedd4-2
Authors: Rotin Daniela , Prag Gali
Published: November 2023

The Nedd4 family of E3 ubiquitin ligases, consisting of a C2-WW(n)-HECT domain architecture, includes the closely related Nedd4/Nedd4-1 and Nedd4L/Nedd4-2, which play critical roles in human physiology and pathophysiology.This review focuses on the regulation of enzymatic activity of these Nedd4 proteins, as well as on their roles in regulating stability and function of membrane and other signaling proteins, such as ion channels, ion transporters, and growth factor receptors. The diseases caused by impairment of such regulation are discussed, as well as opportunities and challenges for targeting these enzymes for therapy.
Design of Single Input Dual Output DC–DC Converter for Electric Vehicle Application
Authors: S Sankara Kumar , K Ramash Kumar
Published: November 2023

DC–DC converters are playing a vital in the electric vehicles (EVs) application. In current EVs, a separate DC–DC converter is used to charge both in the low voltage and the high‐voltage batteries. These factors have resulted in higher output voltage ripples, higher switching and device conduction losses, all of which can have an impact on EV performance. In addition, the previous mulitport converters have more number of energy storage elements and switching devices for EV application. To address these issues, this article proposes a multiport DC–DC converter charging circuit for EVs. The proposed circuit has a single‐input dual‐output (SIDO) structure that consists of a positive output boost converter (POBC) with integration of buck converter (POBCIBC). Here, the POBC is used to stepping‐up the voltage, while the buck converter is used to step‐down the voltage. The POBC is a fundamental topology composed of Cascaded Boost Super Lift Luo Converters. The designed POBCIBC has several advantages such as reduced output voltage ripples, high‐voltage transfer gain, proficient efficiency, lower switching and conduction losses, less number of storage components, and a compact structure over the existing multiport converters. The performance of the POBCIBC is tested at different operating conditions by constructing the MATLAB/Simulink and prototype models. The proposed converter has produced different output voltage levels based on their duty cycles variations. The results are presented to show the proficient POBCIBC for the EV application.
Mathematical Modeling and Analysis of COVID-19 Infection: Application to the Kingdom of Saudi Arabia Data
Authors: Alzahrani Ebraheem , Khan Muhammad Altaf
Published: November 2023

To evaluate the probable effects of the COVID-19 outbreak on Saudi Arabia, a novel dynamical model is developed. Using the most recent instances of COVID-19 infection that have been reported in Saudi Arabia, we examine the roles of quarantine and hospitalization. The model’s mathematical outcomes are displayed. The model’s infection-free equilibrium is displayed, and asymptotically, it is determined to be both locally and globally stable. We demonstrate that the model is locally asymptotically stable (LAS) for the basic reproduction

R

0

<
1

. The model is globally asymptotically stable (GAS) when

R

0

≤
1

. To estimate the model parameters, recent COVID-19 instances in KSA that began between May 1, 2022, and August 4, 2022, are taken into account. We achieve the needed data fitting considering the approach of nonlinear least square, and we demonstrate that the predicted basic reproduction number is

R

0

≈
1.2988

. Graphical representations of the calculated parameters and their effects on disease eradication are provided. The findings show that the most effective way to reduce the number of new instances of infection is to limit the contact of exposed, asymptomatic, symptomatic, and hospitalized people with vulnerable. The percentage of exposed people who are quarantined also plays a big part in lowering the number of infected cases.
CircMMP2(6,7) Cooperates with β-Catenin and PRMT5 to Disrupt Bone Homeostasis and Promote Breast Cancer Bone Metastasis
Authors: Xu Yingru , Li Xincheng , Zhang Shuxia , Tang Miaoling , Yu Ruyuan , Liao Xinyi , Li Ziwen , Li Man , Chen Suwen , Qian Wanying , Song Libing , Ke Zunfu , Li Jun
Published: November 2023

The bone is the most common site of distant metastasis of breast cancer, which leads to serious skeletal complications and mortality. Understanding the mechanisms underlying breast cancer bone metastasis would provide potential strategies for the prevention and treatment of breast cancer bone metastasis. In this study, we identified a circular RNA that we named circMMP2(6,7) that was significantly upregulated in bone metastatic breast cancer tissues and correlated with breast cancer–bone metastasis. Upregulation of circMMP2(6,7) dramatically enhanced the metastatic capability of breast cancer cells to the bone via inducing bone metastatic niche formation by disrupting bone homeostasis. Mechanistically, circMMP2(6,7) specifically bound to the promoters of bone-remodeling factors calcium-binding protein S100A4 and carbohydrate-binding protein LGALS3 and formed a complex with β-catenin and arginine methyltransferase PRMT5, eliciting histone H3R2me1/H3R2me2s-induced transcriptional activation. Treatment with GSK591, a selective PRMT5 inhibitor, effectively inhibited circMMP2(6,7)/β-catenin/PRMT5 complex–induced breast cancer bone metastasis. These findings reveal a role for circMMP2(6,7) in bone homeostasis disruption and shed light on the mechanisms driving breast cancer bone metastasis.

Significance:

Upregulation of bone-remodeling factors S100A4 and LGALS3 mediated by a circMMP2(6,7)/β-catenin/PRMT5 complex generates a niche that supports breast cancer bone metastasis, identifying PRMT5 as a promising target for treating metastasis.
RNA Methyltransferase FTSJ3 Regulates the Type I Interferon Pathway to Promote Hepatocellular Carcinoma Immune Evasion
Authors: Zhuang Qiuyu , Dai Zhiguo , Xu Xuechun , Bai Shaoyi , Zhang Yindan , Zheng Youshi , Xing Xiaohua , Hu En , Wang Yingchao , Guo Wuhua , Zhao Bixing , Zeng Yongyi , Liu Xiaolong
Published: November 2023

Immunotherapies such as immune checkpoint blockade have achieved remarkable success in treating cancer. Unfortunately, response rates have been limited in multiple cancers including hepatocellular carcinoma (HCC). The critical function of epigenetics in tumor immune evasion and antitumor immunity supports harnessing epigenetic regulators as a potential strategy to enhance the efficacy of immunotherapy. Here, we discovered a tumor-promoting function of FTSJ3, an RNA 2′-O-methyltransferase, in HCC by suppressing antitumor immune responses. FTSJ3 was upregulated in hepatocellular carcinoma, and high FTSJ3 expression correlated with reduced patient survival. Deletion of FTSJ3 blocked HCC growth and induced robust antitumor immune responses. Mechanistically, FTSJ3 suppressed double-stranded RNA (dsRNA)–induced IFNβ signaling in a 2′-O-methyltransferase manner. Deletion of RNA sensors in HCC cells or systemic knockout of type I IFN receptor IFNAR in mice rescued the in vivo tumor growth defect caused by FTSJ3 deficiency, indicating that FTSJ3 deletion suppresses tumor growth by activating the RNA sensor–mediated type I IFN pathway. Furthermore, FTSJ3 deletion significantly enhanced the efficacy of programmed cell death protein 1 (PD-1) immune checkpoint blockade. The combination of FTSJ3 deficiency and anti–PD-1 antibody treatment effectively eradicated tumors and increased the survival time. In conclusion, this study reveals an epigenetic mechanism of tumor immune evasion and, importantly, suggests FTSJ3-targeting therapies as potential approach to overcome immunotherapy resistance in patients with HCC.

Significance:

Hepatocellular carcinoma cells use 2′-O-methylation catalyzed by FTSJ3 for immune evasion by suppressing abnormal dsRNA-mediated type I IFN responses, providing a potential target to activate antitumor immunity and enhance immunotherapy efficacy.
Table S4 from A Phase II Trial of Rivoceranib, an Oral Vascular Endothelial Growth Factor Receptor 2 Inhibitor, for Recurrent or Metastatic Adenoid Cystic Carcinoma
Authors: Hanna Glenn J. , Ahn Myung-Ju , Muzaffar Jameel , Keam Bhumsuk , Bowles Daniel W. , Wong Deborah J. , Ho Alan L. , Kim Sung-Bae , Worden Francis , Yun Tak , Meng Xianzhang , Van Tornout Jan M. , Conlan Maureen G. , Kang Hyunseok
Published: November 2023

Table S4. Rivoceranib Dose Reductions
Table S2 from A Phase II Trial of Rivoceranib, an Oral Vascular Endothelial Growth Factor Receptor 2 Inhibitor, for Recurrent or Metastatic Adenoid Cystic Carcinoma
Authors: Hanna Glenn J. , Ahn Myung-Ju , Muzaffar Jameel , Keam Bhumsuk , Bowles Daniel W. , Wong Deborah J. , Ho Alan L. , Kim Sung-Bae , Worden Francis , Yun Tak , Meng Xianzhang , Van Tornout Jan M. , Conlan Maureen G. , Kang Hyunseok
Published: November 2023

Table S2. Adverse Events of Any Grade that Occurred in ≥10% of Patients [n (%)]
Figure S4 from A Phase II Trial of Rivoceranib, an Oral Vascular Endothelial Growth Factor Receptor 2 Inhibitor, for Recurrent or Metastatic Adenoid Cystic Carcinoma
Authors: Hanna Glenn J. , Ahn Myung-Ju , Muzaffar Jameel , Keam Bhumsuk , Bowles Daniel W. , Wong Deborah J. , Ho Alan L. , Kim Sung-Bae , Worden Francis , Yun Tak , Meng Xianzhang , Van Tornout Jan M. , Conlan Maureen G. , Kang Hyunseok
Published: November 2023

Figure S4. Kaplan-Meier estimate of progression-free survival by blinded independent review committee in the intention-to-treat population.
Supplementary Table S2 from Assessing the Genomic Landscape of Cervical Cancers: Clinical Opportunities and Therapeutic Targets
Authors: Friedman Claire F. , Ravichandran Vignesh , Miller Kathryn , Vanderbilt Chad , Zhou Qin , Iasonos Alexia , Vivek Malavika , Mishra Pamela , Leitao Mario M. , Broach Vance , Sonoda Yukio , Kyi Chrisann , Zamarin Dmitriy , O'Cearbhaill Roisin E. , Konner Jason , Berger Michael F. , Weigelt Britta , Momeni Boroujeni Amir , Park Kay J. , Aghajanian Carol , Solit David B. , Donoghue Mark T.A.
Published: November 2023

Patients with MSI or TMB-H tumors and clinical characteristics
Supplementary Table S3 from The Landscape of Alterations from 1407 Ultra-Rare Sarcomas from the AACR GENIE Database: Clinical Implications
Authors: Denu Ryan A. , Moyers Justin T. , Gouda Mohamed A. , Conley Anthony P. , Lazar Alexander J. , Subbiah Vivek
Published: November 2023

Total number and percent of OncoKB alterations by level and high tumor mutational burden (TMB) by each specific URS histology. The most common alterations for each histology are further delineated in the columns on the right.
Supplementary Table S1 from Assessing the Genomic Landscape of Cervical Cancers: Clinical Opportunities and Therapeutic Targets
Authors: Friedman Claire F. , Ravichandran Vignesh , Miller Kathryn , Vanderbilt Chad , Zhou Qin , Iasonos Alexia , Vivek Malavika , Mishra Pamela , Leitao Mario M. , Broach Vance , Sonoda Yukio , Kyi Chrisann , Zamarin Dmitriy , O'Cearbhaill Roisin E. , Konner Jason , Berger Michael F. , Weigelt Britta , Momeni Boroujeni Amir , Park Kay J. , Aghajanian Carol , Solit David B. , Donoghue Mark T.A.
Published: November 2023

Next-generation sequencing (NGS)-based human papillomavirus read counts. HPV, human papillomavirus; IMPACT, Memorial Sloan Kettering Cancer Center – Integrated Mutation Profiling of Actionable Cancer Targets; ISH, in situ hybridization; Pap, Papanicolaou test
Supplementary Table S2 from The Landscape of Alterations from 1407 Ultra-Rare Sarcomas from the AACR GENIE Database: Clinical Implications
Authors: Denu Ryan A. , Moyers Justin T. , Gouda Mohamed A. , Conley Anthony P. , Lazar Alexander J. , Subbiah Vivek
Published: November 2023

Displayed from left to right is the number of mutations, structural variants (SVs), copy number variants (CNVs), and high tumor mutational burden (TMB-H) by OncoKB level of clinical actionability for each of the 4 groups of sarcomas (ST URS, ST non-URS, bone URS, and bone non-URS). Numbers represent the number of sarcomas with each alteration.
Supplementary Table S1 from The Landscape of Alterations from 1407 Ultra-Rare Sarcomas from the AACR GENIE Database: Clinical Implications
Authors: Denu Ryan A. , Moyers Justin T. , Gouda Mohamed A. , Conley Anthony P. , Lazar Alexander J. , Subbiah Vivek
Published: November 2023

List of specific sarcoma histologies divided by the following classification: soft tissue ultra rare sarcoma (ST URS), soft tissue non-URS (ST non-URS), bone URS, and bone non-URS.
Supplementary Figure S2 from Assessing the Genomic Landscape of Cervical Cancers: Clinical Opportunities and Therapeutic Targets
Authors: Friedman Claire F. , Ravichandran Vignesh , Miller Kathryn , Vanderbilt Chad , Zhou Qin , Iasonos Alexia , Vivek Malavika , Mishra Pamela , Leitao Mario M. , Broach Vance , Sonoda Yukio , Kyi Chrisann , Zamarin Dmitriy , O'Cearbhaill Roisin E. , Konner Jason , Berger Michael F. , Weigelt Britta , Momeni Boroujeni Amir , Park Kay J. , Aghajanian Carol , Solit David B. , Donoghue Mark T.A.
Published: November 2023

Supp Figure 2: Comparison of the MSK-IMPACT Cervical Cancer Cohort and the TCGA cohort for patients with Stages I-IVA disease. HPV, human papillomavirus; IMPACT, Memorial Sloan Kettering Cancer Center – Integrated Mutation Profiling of Actionable Cancer Targets; TCGA, The Cancer Genome Atlas
Supplementary Figure S1 from Assessing the Genomic Landscape of Cervical Cancers: Clinical Opportunities and Therapeutic Targets
Authors: Friedman Claire F. , Ravichandran Vignesh , Miller Kathryn , Vanderbilt Chad , Zhou Qin , Iasonos Alexia , Vivek Malavika , Mishra Pamela , Leitao Mario M. , Broach Vance , Sonoda Yukio , Kyi Chrisann , Zamarin Dmitriy , O'Cearbhaill Roisin E. , Konner Jason , Berger Michael F. , Weigelt Britta , Momeni Boroujeni Amir , Park Kay J. , Aghajanian Carol , Solit David B. , Donoghue Mark T.A.
Published: November 2023

Supp Figure 1: OncoKB Theapeutic Levels of Evidence
Supplementary Appendix 1 from Safety, Efficacy, and Biomarker Analyses of Dostarlimab in Patients with Endometrial Cancer: Interim Results of the Phase I GARNET Study
Authors: Oaknin Ana , Pothuri Bhavana , Gilbert Lucy , Sabatier Renaud , Brown Jubilee , Ghamande Sharad , Mathews Cara , O'Malley David M. , Kristeleit Rebecca , Boni Valentina , Gravina Adriano , Banerjee Susana , Miller Rowan , Pikiel Joanna , Mirza Mansoor R. , Dewal Ninad , Antony Grace , Dong Yuping , Zografos Eleftherios , Veneris Jennifer , Tinker Anna V.
Published: November 2023

This includes supplementary tables and figures
Supplementary Table S3 from Oncogenic Drivers and Therapeutic Vulnerabilities in KRAS Wild-Type Pancreatic Cancer
Authors: Singh Harshabad , Keller Rachel B. , Kapner Kevin S. , Dilly Julien , Raghavan Srivatsan , Yuan Chen , Cohen Elizabeth F. , Tolstorukov Michael , Andrews Elizabeth , Brais Lauren K. , da Silva Annacarolina , Perez Kimberly , Rubinson Douglas A. , Surana Rishi , Giannakis Marios , Ng Kimmie , Clancy Thomas E. , Yurgelun Matthew B. , Schlechter Benjamin L. , Clark Jeffrey W. , Shapiro Geoffrey I. , Rosenthal Michael H. , Hornick Jason L. , Nardi Valentina , Li Yvonne Y. , Gupta Hersh , Cherniack Andrew D. , Meyerson Matthew , Cleary James M. , Nowak Jonathan A. , Wolpin Brian M. , Aguirre Andrew J.
Published: November 2023

Organoid Drug Treatment Schedules
Supplementary Table S18 from Oncogenic Drivers and Therapeutic Vulnerabilities in KRAS Wild-Type Pancreatic Cancer
Authors: Singh Harshabad , Keller Rachel B. , Kapner Kevin S. , Dilly Julien , Raghavan Srivatsan , Yuan Chen , Cohen Elizabeth F. , Tolstorukov Michael , Andrews Elizabeth , Brais Lauren K. , da Silva Annacarolina , Perez Kimberly , Rubinson Douglas A. , Surana Rishi , Giannakis Marios , Ng Kimmie , Clancy Thomas E. , Yurgelun Matthew B. , Schlechter Benjamin L. , Clark Jeffrey W. , Shapiro Geoffrey I. , Rosenthal Michael H. , Hornick Jason L. , Nardi Valentina , Li Yvonne Y. , Gupta Hersh , Cherniack Andrew D. , Meyerson Matthew , Cleary James M. , Nowak Jonathan A. , Wolpin Brian M. , Aguirre Andrew J.
Published: November 2023

Clinical and genomic features of early vs. late onset pancreatic cancer
Supplementary Table S17 from Oncogenic Drivers and Therapeutic Vulnerabilities in KRAS Wild-Type Pancreatic Cancer
Authors: Singh Harshabad , Keller Rachel B. , Kapner Kevin S. , Dilly Julien , Raghavan Srivatsan , Yuan Chen , Cohen Elizabeth F. , Tolstorukov Michael , Andrews Elizabeth , Brais Lauren K. , da Silva Annacarolina , Perez Kimberly , Rubinson Douglas A. , Surana Rishi , Giannakis Marios , Ng Kimmie , Clancy Thomas E. , Yurgelun Matthew B. , Schlechter Benjamin L. , Clark Jeffrey W. , Shapiro Geoffrey I. , Rosenthal Michael H. , Hornick Jason L. , Nardi Valentina , Li Yvonne Y. , Gupta Hersh , Cherniack Andrew D. , Meyerson Matthew , Cleary James M. , Nowak Jonathan A. , Wolpin Brian M. , Aguirre Andrew J.
Published: November 2023

Clinical-Genomic Characteristics Of Early Onset (Age <45) KRAS WT Pancreatic Cancer
Supplementary Table S7 from Effective Reprogramming of Patient-Derived M2-Polarized Glioblastoma-Associated Microglia/Macrophages by Treatment with GW2580
Authors: Fermi Valentina , Warta Rolf , Wöllner Amélie , Lotsch Catharina , Jassowicz Lena , Rapp Carmen , Knoll Maximilian , Jungwirth Gerhard , Jungk Christine , Dao Trong Philip , von Deimling Andreas , Abdollahi Amir , Unterberg Andreas , Herold-Mende Christel
Published: November 2023

gene set enrichment analysis
Supplementary Table S5 from Effective Reprogramming of Patient-Derived M2-Polarized Glioblastoma-Associated Microglia/Macrophages by Treatment with GW2580
Authors: Fermi Valentina , Warta Rolf , Wöllner Amélie , Lotsch Catharina , Jassowicz Lena , Rapp Carmen , Knoll Maximilian , Jungwirth Gerhard , Jungk Christine , Dao Trong Philip , von Deimling Andreas , Abdollahi Amir , Unterberg Andreas , Herold-Mende Christel
Published: November 2023

Common differentially expressed genes upon CSF1R blockade in pGBM patient-derived GAMs (upregulated)