bluuebunny/crossref_metadata_2025_split huggingface dataset:
Regulation of early diagnosis and prognostic markers of lung adenocarcinoma in immunity and hypoxia
Authors: Sun Kang , Zhang Zhiqiang , Wang Dongqin , Huang Yinlong , Zhang Jing , Lian Chaoqun 
Published: April 2023

AbstractLung adenocarcinoma is still cancer with the highest mortality. Hypoxia and immunity play an essential role in the occurrence and development of tumors. Therefore, this study is mainly to find new early diagnosis and prognosis markers and explore the relationship among the markers and immunity and hypoxia, to improve the prognosis of patients. Firstly, based on the clinical database in TCGA, we determined the most critical clinicopathological parameters affecting the prognosis of patients through a variety of analysis methods. According to pathological parameters, logistic most minor absolute contraction selection operator (lasso), univariate and multivariate regression analysis, the risk genes related to early prognosis were screened, and the risk model was established. Then, in different risk groups, GSEA and CIBERSORT algorithms were used to analyze the distribution and enrichment of the immune cells and hypoxia, to study the effects of early prognostic indicators on hypoxia and immunity. At the same time, we analyzed the different levels of risk genes in normal cells (BSEA-2B) and tumor cells (H1299, A549, PC9, and H1975). Finally, A549 and PC9 cells were induced by CoCl2 to establish a hypoxic environment, and the correlation between risk genes and HIF1A was analyzed. The risk model based on risk genes (CYP4B1, KRT6A, and FAM83A) was accurate and stable for the prognosis of patients. It is closely related to immunity and hypoxia. In BSEA-2B cells, the mRNA and protein expression of CYP4B1 was higher, while the expression of KRT6A and FAM83A was lower. Finally, we found that FAM83A and HIF1A showed a significant positive correlation when A549 and PC9 cells were exposed to hypoxia. The discovery of early diagnostic markers related to immunity, hypoxia, and prognosis, provides a new idea for early screening and prognostic treatment of lung adenocarcinoma.
Dynamical analysis of a damped harmonic forced duffing oscillator with time delay
Authors: Moatimid Galal M. , Amer T. S. , Amer W. S. 
Published: April 2023

AbstractThis paper is concerned with a time-delayed controller of a damped nonlinear excited Duffing oscillator (DO). Since time-delayed techniques have recently been the focus of numerous studies, the topic of this investigation is quite contemporary. Therefore, time delays of position and velocity are utilized to reduce the nonlinear oscillation of the model under consideration. A much supplementary precise approximate solution is achieved using an advanced Homotopy perturbation method (HPM). The temporal variation of this solution is graphed for different amounts of the employed factors. The organization of the model is verified through a comparison between the plots of the estimated solution and the numerical one which is obtained utilizing the fourth order Runge–Kutta technique (RK4). The outcomes show that the improved HPM is appropriate for a variety of damped nonlinear oscillators since it minimizes the error of the solution while increasing the validation variety. Furthermore, it presents a potential model that deals with a diversity of nonlinear problems. The multiple scales homotopy technique is used to achieve an estimated formula for the suggested time-delayed structure. The controlling nonlinear algebraic equation for the amplitude oscillation at the steady state is gained. The effectiveness of the proposed controller, the time delays impact, controller gains, and feedback gains have been investigated. The realized outcomes show that the controller performance is influenced by the total of the product of the control and feedback gains, in addition to the time delays in the control loop. The analytical and numerical calculations reveal that for certain amounts of the control and feedback signal improvement, the suggested controller could completely reduce the system vibrations. The obtained outcomes are considered novel, in which the used methods are applied on the DO with time-delay. The increase of the time delay parameter leads to a stable case for the DO, which is in harmony with the influence of this parameter. This drawn curves show that the system reaches a stable fixed point which assert the presented discussion.
Machine learning for design of degenerate Cas13a crRNAs using lassa virus as a model of highly variable RNA target
Authors: Leski T. A. , Spangler J. R. , Wang Z. , Schultzhaus Z. , Taitt C. R. , Dean S. N. , Stenger D. A. 
Published: April 2023

AbstractThe design of minimum CRISPR RNA (crRNA) sets for detection of diverse RNA targets using sequence degeneracy has not been systematically addressed. We tested candidate degenerate Cas13a crRNA sets designed for detection of diverse RNA targets (Lassa virus). A decision tree machine learning (ML) algorithm (RuleFit) was applied to define the top attributes that determine the specificity of degenerate crRNAs to elicit collateral nuclease activity. Although the total number of mismatches (0–4) is important, the specificity depends as well on the spacing of mismatches, and their proximity to the 5’ end of the spacer. We developed a predictive algorithm for design of candidate degenerate crRNA sets, allowing improved discrimination between “included” and “excluded” groups of related target sequences. A single degenerate crRNA set adhering to these rules detected representatives of all Lassa lineages. Our general ML approach may be applied to the design of degenerate crRNA sets for any CRISPR/Cas system.
The effect of critical coupling constants on superconductivity enhancement
Authors: Wang Peir-Ru , Yeh Jien-Wei , Lee Yi-Hsien 
Published: April 2023

AbstractIn this study, we propose a phenomenological model to extend McMillan's results on a coupling strength equal to 2. We investigate possible strategies to enhance superconductivity by tuning the phonon frequency, carrier number, or pressure. In particular, we show that the critical coupling constants corresponding to the phonon frequency, carrier number, or pressure determine whether the variation of the critical temperature is positive or negative. These observations explain the contrasting behavior between weak and strong coupling superconductors and are consistent with experimental observations. We also demonstrate the dome observed in the carrier number effect and pressure effect. Additionally, these critical coupling constants systematically separate superconductivity into three regions: weak, intermediate, and strong coupling. We find that the enhancement strategies for weak and strong coupling regions are opposite, but both inevitably bring superconductivity into the intermediate coupling region. Finally, we propose general zigzag methods for intermediate coupling superconductors to further enhance the critical temperature.
The therapeutic potential of neurofibromin signaling pathways and binding partners
Authors: Báez-Flores Juan , Rodríguez-Martín Mario , Lacal Jesus 
Published: April 2023

AbstractNeurofibromin controls many cell processes, such as growth, learning, and memory. If neurofibromin is not working properly, it can lead to health problems, including issues with the nervous, skeletal, and cardiovascular systems and cancer. This review examines neurofibromin’s binding partners, signaling pathways and potential therapeutic targets. In addition, it summarizes the different post-translational modifications that can affect neurofibromin’s interactions with other molecules. It is essential to investigate the molecular mechanisms that underlie neurofibromin variants in order to provide with functional connections between neurofibromin and its associated proteins for possible therapeutic targets based on its biological function.
Zeb1 facilitates corneal epithelial wound healing by maintaining corneal epithelial cell viability and mobility
Authors: Zhang Yingnan , Do Khoi K. , Wang Fuhua , Lu Xiaoqin , Liu John Y. , Li Chi , Ceresa Brian P. , Zhang Lijun , Dean Douglas C. , Liu Yongqing 
Published: April 2023

AbstractThe cornea is the outmost ocular tissue and plays an important role in protecting the eye from environmental insults. Corneal epithelial wounding provokes pain and fear and contributes to the most ocular trauma emergency assessments worldwide. ZEB1 is an essential transcription factor in development; but its roles in adult tissues are not clear. We identify Zeb1 is an intrinsic factor that facilitates corneal epithelial wound healing. In this study, we demonstrate that monoallelic deletion of Zeb1 significantly expedites corneal cell death and inhibits corneal epithelial EMT-related cell migration upon an epithelial debridement. We provide evidence that Zeb1-regulation of corneal epithelial wound healing is through the repression of genes required for Tnfa-induced epithelial cell death and the induction of genes beneficial for epithelial cell migration. We suggest utilizing TNF-α antagonists would reduce TNF/TNFR1-induced cell death in the corneal epithelium and inflammation in the corneal stroma to help corneal wound healing.
SituSeq: an offline protocol for rapid and remote Nanopore 16S rRNA amplicon sequence analysis
Authors: Zorz Jackie , Li Carmen , Chakraborty Anirban , Gittins Daniel A , Surcon Taylor , Morrison Natasha , Bennett Robbie , MacDonald Adam , Hubert Casey R J 
Published: April 2023

Abstract
Microbiome analysis through 16S rRNA gene sequencing is a crucial tool for understanding the microbial ecology of any habitat or ecosystem. However, workflows require large equipment, stable internet, and extensive computing power such that most of the work is performed far away from sample collection in both space and time. Performing amplicon sequencing and analysis at sample collection would have positive implications in many instances including remote fieldwork and point-of-care medical diagnoses. Here we present SituSeq, an offline and portable workflow for the sequencing and analysis of 16S rRNA gene amplicons using Nanopore sequencing and a standard laptop computer. SituSeq was validated by comparing Nanopore 16S rRNA gene amplicons, Illumina 16S rRNA gene amplicons, and Illumina metagenomes, sequenced using the same environmental DNA. Comparisons revealed consistent community composition, ecological trends, and sequence identity across platforms. Correlation between the abundance of taxa in each taxonomic level in Illumina and Nanopore data sets was high (Pearson’s r &gt; 0.9), and over 70% of Illumina 16S rRNA gene sequences matched a Nanopore sequence with greater than 97% sequence identity. On board a research vessel on the open ocean, SituSeq was used to analyze amplicon sequences from deep sea sediments less than 2 h after sequencing, and 8 h after sample collection. The rapidly available results informed decisions about subsequent sampling in near real-time while the offshore expedition was still underway. SituSeq is a portable and user-friendly workflow that helps to bring the power of microbial genomics and diagnostics to many more researchers and situations.
Swine farm groundwater is a hidden hotspot for antibiotic-resistant pathogenic Acinetobacter
Authors: Gao Fang-Zhou , He Liang-Ying , Chen Xin , Chen Jing-Liang , Yi Xinzhu , He Lu-Xi , Huang Xin-Yi , Chen Zi-Yin , Bai Hong , Zhang Min , Liu You-Sheng , Ying Guang-Guo 
Published: April 2023

Abstract
Acinetobacter is present in the livestock environment, but little is known about their antibiotic resistance and pathogenic species in the farm groundwater. Here we investigated antibiotic resistance of Acinetobacter in the swine farm groundwater (JZPG) and residential groundwater (JZG) of a swine farming village, in comparison to a nearby (3.5 km) non-farming village (WTG) using metagenomic and culture-based approaches. Results showed that the abundance of antibiotic resistome in some JZG and all JZPG (~3.4 copies/16S rRNA gene) was higher than that in WTG (~0.7 copies/16S rRNA gene), indicating the influence of farming activities on both groundwater types. Acinetobacter accounted for ~95.7% of the bacteria in JZG and JZPG, but only ~8.0% in WTG. They were potential hosts of ~95.6% of the resistome in farm affected groundwater, which includes 99 ARG subtypes against 23 antibiotic classes. These ARGs were associated with diverse intrinsic and acquired resistance mechanisms, and the predominant ARGs were tetracyclines and fluoroquinolones resistance genes. Metagenomic binning analysis elucidated that non-baumannii Acinetobacter including A. oleivorans, A. beijerinckii, A. seifertii, A. bereziniae and A. modestus might pose environmental risks because of multidrug resistance, pathogenicity and massive existence in the groundwater. Antibiotic susceptibility tests showed that the isolated strains were resistant to multiple antibiotics including sulfamethoxazole (resistance ratio: 96.2%), levofloxacin (42.5%), gatifloxacin (39.0%), ciprofloxacin (32.6%), tetracycline (32.0%), doxycycline (29.0%) and ampicillin (12.0%) as well as last-resort polymyxin B (31.7%), colistin (24.1%) and tigecycline (4.1%). The findings highlight potential prevalence of groundwater-borne antibiotic-resistant pathogenic Acinetobacter in the livestock environment.
A Critical Analysis of State-Level Policies Impacting Racialized Emergent Bilinguals Suspected or Labeled as Dis/abled
Authors: Soto-Boykin Xigrid , Brea-Spahn María Rosa , Perez Shakira , McKenna Meaghan 
Published: April 2023

Purpose:
The purpose of this review article is to conduct a critical analysis of state-level policies focusing on the provision of speech-language therapy and special education to children and youth who are racialized emergent bilinguals (REBs) suspected or labeled as dis/abled.

Method:
We analyzed the state-level policies focusing on speech-language therapy and/or special education of California, Kansas, Florida, and New York. We coded content in terms of labels used to describe REBs; the focus of states' policies, whether the policy mentioned the provision of bilingual services, and the orientation toward bilingualism. Thematic analyses and descriptive statistics were used to analyze the policies, and interrater reliability was calculated.

Results:
The results of this review revealed that most state-level policies contain English-centric, deficit-based labels to describe REBs and that most focus primarily on the classification and eligibility for dis/ability. Only one state addresses the provision of bilingual education for REBs labeled as dis/abled. The bulk of policies are underpinned by an ideology of “bilingualism as a difference,” meaning that the main idea of the policies is that emerging English skills does not result in a dis/ability.

Conclusions:
Policies do not exist in a vacuum and are influenced by sociopolitical ideologies. The findings of this review highlight the urgency of applying an intersectional, justice-focused approach to the policies and practices impacting REBs suspected and/or labeled as disabled in the fields of speech-language therapy and special education.
Two-wavelength digital holography through fog
Authors: Gröger Alexander , Pedrini Giancarlo , Fischer Felix , Claus Daniel , Aleksenko Igor , Reichelt Stephan 
Published: April 2023

Interferometric detection enables the acquisition of the amplitude and phase of the optical field. By making use of the synthetic wavelength as a computational construct arising from digital processing of two off-axis digital holograms, it is possible to identify the shape of an object obscured by fog and further increase the imaging range due to the increased sensitivity in coherent detection. Experiments have been conducted inside a 27 m long fog tube filled with ultrasonically generated fog. We show the improved capabilities of synthetic phase imaging through fog and compare this technique with conventional active laser illumination imaging.
Scarless Two-Stage Delayed Coloanal Anastomosis: A Technique Description
Authors: Bendib Hani , Oukrine Hind , Djelali Nabil , Lahrech Said , Elbahi Ameur , Chekman Chemseddine , Azzouz Abdelghani , Anou Abdelkrim , Djennaoui Azeddine 
Published: April 2023

Abstract
Introduction In current clinical practice, immediate coloanal anastomosis (ICA) remains the standard technique for restoring the gastrointestinal tract following coloproctectomy for low rectal cancer. This anastomosis still requires a temporary diverting stoma to decrease the postoperative morbidity, which remains significantly high. As an alternative, some authors have proposed a two-stage delayed coloanal anastomosis (TS-DCA). This article reports on the surgical technique of TS-DCA.
Methods The case described is of a 53-year-old woman, without any particular history, in whom colonoscopy motivated by rectal bleeding revealed an adenocarcinoma of the low rectum. Magnetic resonance imaging showed a tumor ∼ 1 cm above the puborectalis muscle, graded cT3N + . The extension workup was negative. Seven weeks after chemoradiotherapy, a coloproctectomy with total mesorectal excision (TME) was performed. A TS-DCA was chosen to restore the digestive tract.
Conclusion Two-stage delayed coloanal anastomosis is a safe and effective alternative for restoring the digestive tract after proctectomy for low rectal cancer. Recent data seem to show a clear advantage of this technique in terms of morbidity.
Bilateral Uveitis in Silent Ulcerative Colitis: Case Report
Authors: Alwais Saba Hussein , Alrikabi Mohammed Hadi , Alshewered Ahmed Salih 
Published: April 2023

AbstractSilent or subclinical inflammatory bowel diseases (IBD) is a relatively new term that has been used to describe individuals with asymptomatic active mucosal bowel inflammation, often unaware of their disease due to either the lack of or mild inflammatory symptoms. These patients are at risk for gastrointestinal and extra-gastrointestinal manifestations, with more advanced complications. In this article we intend to describe a case report of a patient with chronic history of many organ involvements including ocular, skin, and musculoskeletal, which was later placed under the umbrella of silent ulcerative colitis.
Approaches in the treatment of perianal fistula in Crohn disease
Authors: Li Rui 
Published: April 2023

AbstractPerianal fistula is a common complication of Crohn disease, and it is a great burden on the life and psychology of patients, but its treatment is still a difficult problem to face. In recent years, progress in the treatment of Crohn disease has progressed rapidly due to the advent of biological agents, but there has been a lack of research on perianal fistula in Crohn disease, and the direction of research has been scattered; therefore, the author reviews the traditional treatment of perianal fistula in Crohn disease in the context of the available literature and discusses emerging and potential therapeutic approaches.
Central Nervous System Neuroimmunologic Complications of COVID-19
Authors: Holroyd Kathryn B. , Conway Sarah E. 
Published: April 2023

AbstractAutoimmune disorders of the central nervous system following COVID-19 infection include multiple sclerosis (MS), neuromyelitis optica spectrum disorder, myelin oligodendrocyte glycoprotein antibody-associated disease, autoimmune encephalitis, acute disseminated encephalomyelitis, and other less common neuroimmunologic disorders. In general, these disorders are rare and likely represent postinfectious phenomena rather than direct consequences of the SARS-CoV-2 virus itself. The impact of COVID-19 infection on patients with preexisting neuroinflammatory disorders depends on both the disorder and disease-modifying therapy use. Patients with MS do not have an increased risk for severe COVID-19, though patients on anti-CD20 therapies may have worse clinical outcomes and attenuated humoral response to vaccination. Data are limited for other neuroinflammatory disorders, but known risk factors such as older age and medical comorbidities likely play a role. Prophylaxis and treatment for COVID-19 should be considered in patients with preexisting neuroinflammatory disorders at high risk for developing severe COVID-19.
Sulfasalazine exposure during pregnancy and lactation: reproductive outcomes in male rat offspring
Authors: Forcato Simone , Aquino Ana Beatriz de Oliveira , Borges Lorena I. , Thomé Maria Luiza Francisconi Lubanco , Bilibio Júlia O. , Lens Hannah Hamada Mendonça , Erthal Rafaela P. , Guarnier Flávia A. , Fernandes Glaura Scantamburlo Alves , Gerardin Daniela Cristina Ceccatto 
Published: April 2023

Context Sulfasalazine (SAS) is a drug prescribed for pregnant and breastfeeding women with chronic inflammatory bowel diseases. SAS treatment induces transitory infertility in both adult men and male rats. Although SAS crosses the placenta and passes into maternal milk, the consequences of maternal SAS exposure on the reproductive development of male offspring needs further study. Aims The current study evaluated whether maternal SAS exposure interferes with the reproductive development of male rat offspring in the neonatal, infant, pubertal and adulthood periods. Methods Pregnant Wistar rats (n = 10/group) received 300 mg/kg/day of SAS dissolved in carboxymethyl cellulose (CMC), by gavage, from gestational day 0 to lactation day 21, and 3 mg/kg/day of folic acid during gestation. The control group received CMC. Key results During puberty, maternal SAS exposure increased the total length of seminiferous tubules, and round cells were observed in the lumen of caput and cauda epididymis. Moreover, SAS induced oxidative stress-related alterations in the testes of infant and adolescent rats. Conclusions Although maternal SAS treatment caused reproductive alterations in infant and adolescent male rats, in adulthood, there were no impairments in sperm parameters that could compromise fertility. Implications This study investigated the consequences of maternal exposure to SAS on the reproductive development of male rat offspring from birth to adulthood, employing a human-relevant dose. Thus, this study provides information for better understanding of SAS treatment during critical periods of development.
A study on the intertextuality of Russian media
Authors: Kim Na-young 
Published: April 2023

Abstract
Intertextuality refers to the quality that connects the author and the reader within a single text or, more broadly, the relationship between texts. This study considered the author’s implicit textual intention and the expected effect on the text reader to analyze intertextuality. This study’s subject was the news text from the Russian news program Vesti Nedeli. The motivation behind this study was that anchor briefings are often used in news reports and that the anchor’s value judgments are often highlighted. Using previous researchers’ framing and orientation criteria, I examined how these factors manifested themselves in the news text under investigation. Furthermore, I proposed additional analysis criteria for strategic exposure and metaphor usage. Strategic exposure refers to empowering the text’s development and the text producer’s logic by intentionally exposing a specific scene, whereas metaphors emphasize an object’s positive or negative connotations by using a specific image.