bluuebunny/crossref_metadata_2025_split huggingface dataset:
Microbial community composition in subgingival plaques and heterogeneity of tumor tissue TCRβ CDR3 repertoire in patients with moderate-to-severe periodontitis and oral squamous cell carcinoma
Authors: Huang Jie , Yang Kun , Gao Li , He Quanmin , Ge Song 
Published: September 2024

BACKGROUND: The human oral cavity contains over 700 types of bacteria that may protect the body against colonization by exogenous pathogens and maintain relative homeostasis. However, alterations in the immune status can disrupt the balance between microorganisms and the host, inducing various diseases such as oral cancer and diabetes mellitus. The mechanism underlying this process is not clearly understood. OBJECTIVE: The purpose of this study was to investigate the relationships between subgingival bacteria, T-cell receptor [Formula: see text]-chain complementarity-determining region 3 (TCR[Formula: see text] CDR3), and the development oforal squamous cell carcinoma (OSCC). METHODS: We grouped patients as “healthy periodontal” (H), “moderate-to-severe chronic periodontitis” (C), and “moderate-to-severe chronic periodontitis with OSCC” (T). Bacterial groups were “subgingival plaque” (bp) and “gingival/tumor tissue” (g). We also recorded patients’ age, gender, attachment level (AL), bleeding on probing (BOP), and probing depth (PD). We extracted and sequenced RNA from plaques, gingival tissues, tumors, and teeth. We performed high-throughput sequencing on TCR[Formula: see text] CDR3 and plaque bacteria. RESULTS: Synergistetes and Veillonella parvula were more abundant in the H group than in the T group. Granulicatella, Peptostreptococcus, and Streptococcus infantis were enriched in the T-bp group. AL, BOP, and PD were positively correlated with Granulicatella, Peptostreptococcus, and Pseudomonas but negatively correlated with Prevotella nigrescens and V. parvula. TCR[Formula: see text] CDR3 diversity was C [Formula: see text] H [Formula: see text] T. TCR [Formula: see text]-chain Variable gene (TRBV)20-1 usage varied among the H, C, and T groups. TRBV2 and TRBV5-1 usage was greater in the T group than in the C group. TRBJ1-1, TRBJ1-2, TRBJ2-2, TRBJ2-7, and TRBJ2-5 were most frequently used. CONCLUSIONS: These trends and the reduction of gingival Synergistetes were correlated with OSCC. TCR[Formula: see text] CDR3 diversity was the lowest in patients in the T group, and there were considerable changes in the expression of TRBV2 and TRBJ. Therefore, plaque bacterial composition can influence TCR[Formula: see text] CDR3.
Arterial variations and hemodynamic impact in the upper limb: Insights from an observational study
Authors: Chen Xin , Yu Zhengya , Wu Jixiang 
Published: September 2024

BACKGROUND: The incidence of arterial variations in the upper limb is variable among ethnic groups. However, there are only a few studies on the Asian population, particularly in China. OBJECTIVE: This research provided the first large data series on arterial variations in the upper limb of Chinese adults. METHODS: In this observational study, the arteries in the upper limb of consecutive patients were analyzed between July 2020 and June 2021, and the hemodynamic variables of each patient were collected. RESULTS: The brachial artery deviated in 6.60% of upper limbs (11.89% of patients), and the brachioradial artery (BRA) was the most frequent variation. In the wrists of all patients, the volume flow (VF) of the BRA was lower than that of the radial artery (RA). Besides, the VF of the BRA in patients with end-stage renal disease (ESRD) was lower than that in those without ESRD in the wrist. Additionally, in the forearms of patients without ESRD, the VF of the BRA was lower than that of the RA. In the upper arm of patients with ESRD, the VF of the brachial artery in patients with BRA was significantly lower than that in patients with RA. CONCLUSION: The incidence of arterial variations in the upper limb of Chinese adults was 6.60% (limbs) or 11.89% (patients) in this study. In our investigation, the BRA was the most common high bifurcation of the brachial artery type. Furthermore, the Chi-squared test revealed significant differences in the distribution, which was common in the right upper limb but not in sex.
Green ternary composite of graphitic carbon nitride/TiO2/ polyorthoanisidine for the enhanced photocatalytic treatment of Direct Red 28 for industrial water treatment solutions
Authors: Alkorbi Ali S. , Gill Nouman , Anjum Muhammad Naveed , Saif Muhammad Jawwad , Ahmad Mirza Nadeem , Qadir Muhammad Bilal , Khaliq Zubair , Faisal Mohd , Jalalah Mohammed , Harraz Farid A. 
Published: September 2024

Industrial dye effluent causes significant risks to the environment. The present study was focused on photocatalytic degradation of the dye Direct Red 28 using a ternary composite of graphitic carbon nitride, TiO2, and polyorthoanisidine (g-C3N4/TiO2/POA), prepared by in-situ oxidative polymerization o-anisidine. The synthesized composite g-C3N4/TiO2/POA properties were characterized using different analytical techniques. X-ray diffraction (XRD) results revealed the prominent pattern of TiO2 and g-C3N4 in the composite peak at 2θ° while Fourier transform infrared (FTIR) results provided the confirmation peaks for g-C3N4/TiO2/POA and POA at 1,110 cm−1 and 1,084 cm−1 for C-O-C ether. Scanning electron microscopy (SEM) demonstrated an increase in the average size of the composite up to 428 nm. The energy-dispersive X-ray spectroscopy (EDX) spectrum provided the weight percentages of the C, O, and Ti in the composite were 8.5%, 45.69%, and 45.81%, respectively. The photocatalytic degradation of Direct Red 28 dye under UV irradiation using a composite showed that 86% Direct Red 28 dye was degraded by a 30 mg/L dose of g-C3N4/TiO2/POA in 240 min at pH 2. After four consecutive cycles, the utilized composite showed 79% degradation of Direct Red 28, demonstrating the stability and effectiveness of the g-C3N4/TiO2/POA photocatalyst. The high reusability and efficiency of the g-C3N4/TiO2/POA composite are due to increased light absorption range and reduced e−/h+ recombination rate in the presence of g-C3N4 and POA.
Personality and COMT gene: molecular-genetic and epigenetic associations with NEO-PI-R personality domains and facets in monozygotic twins
Authors: Mitrović Dušanka , Smederevac Snežana , Delgado-Cruzata Lissette , Sadiković Selka , Pajić Dejan , Prinz Mechthild , Budimlija Zoran , Oljača Milan , Kušić-Tišma Jelena , Vučinić Nataša , Milutinović Aleksandra 
Published: September 2024

BackgroundThis study investigates the relationship between MB-COMT DNA methylation (DNAm) and the personality traits outlined in the NEO-PI-R model through an epigenetic study of monozygotic twins. DNAm, a critical epigenetic mechanism, regulates gene expression and has been linked to various biological processes and disorders. By leveraging the genetic similarities of monozygotic twins, this research explores how epigenetic variations influenced by environmental factors correlate with personality differences.MethodsThe study utilized the Five-Factor Model (FFM) to categorize personality traits into five domains: Neuroticism, Extraversion, Conscientiousness, Agreeableness, and Openness to Experience. Each domain comprises six facets, providing a granular view of personality. The research centered on the catechol-O-methyltransferase (COMT) gene, focusing on its role in dopamine metabolism, which is hypothesized to influence personality traits through the dopaminergic system. DNAm status in the MB-COMT promoter region was examined to determine its association with personality facets.ResultsPreliminary findings suggest a complex interaction between MB-COMT DNAm patterns and personality traits. Specific methylation patterns at different CpG sites were linked to varying expressions of traits such as impulsivity and aggression, highlighting the nuanced impact of epigenetics on personality.ConclusionThis study underscores the potential of integrating genetic, epigenetic, and environmental data to enhance our understanding of personality formation. The results contribute to a broader understanding of how genetic predispositions shaped by environmental factors manifest in complex trait differences, paving the way for future research in genetic psychiatry and personalized medicine.
Automated manufacturing and characterization of clinical grade autologous CD20 CAR T cells for the treatment of patients with stage III/IV melanoma
Authors: Aleksandrova Krasimira , Leise Jana , Priesner Christoph , Aktas Murat , Apel Michael , Assenmacher Mario , Bürger Iris , Richter Anne , Altefrohne Pia , Schubert Christine , Holzinger Astrid , Barden Markus , Bezler Valerie , von Bergwelt-Baildon Michael , Borchmann Peter , Goudeva Lilia , Glienke Wolfgang , Arseniev Lubomir , Esser Ruth , Abken Hinrich , Koehl Ulrike 
Published: September 2024

IntroductionPoint-of-care (POC) manufacturing of chimeric antigen receptor (CAR) modified T cell has expanded rapidly over the last decade. In addition to the use of CD19 CAR T cells for hematological diseases, there is a growing interest in targeting a variety of tumor-associated epitopes.MethodsHere, we report the manufacturing and characterization of autologous anti-CD20 CAR T cells from melanoma patients within phase I clinical trial (NCT03893019). Using a second-generation lentiviral vector for the production of the CD20 CAR T cells on the CliniMACS Prodigy®.ResultsWe demonstrated consistency in cell composition and functionality of the products manufactured at two different production sites. The T cell purity was &gt;98.5%, a CD4/CD8 ratio between 2.5 and 5.5 and transduction rate between 34% and 61% on day 12 (harvest). Median expansion rate was 53-fold (range, 42–65-fold) with 1.7-3.8×109 CAR T cells at harvest, a sufficient number for the planned dose escalation steps (1×105/kg, 1×106/kg, 1×107/kg BW). Complementary research of some of the products pointed out that the CAR+ cells expressed mainly central memory T-cell phenotype. All tested CAR T cell products were capable to translate into T cell activation upon engagement of CAR target cells, indicated by the increase in pro-inflammatory cytokine release and by the increase in CAR T cell amplification. Notably, there were some interindividual, cell-intrinsic differences at the level of cytokine release and amplification. CAR-mediated T cell activation depended on the level of CAR cognate antigen.DiscussionIn conclusion, the CliniMACS Prodigy® platform is well suited for decentralized POC manufacturing of anti-CD20 CAR T cells and may be likewise applicable for the rapid and automated manufacturing of CAR T cells directed against other targets.Clinical trial registrationhttps://clinicaltrials.gov/study/NCT03893019?cond=Melanoma&amp;term=NCT03893019&amp;rank=1, identifier NCT03893019.
Whole exome sequencing identifies a novel mutation in Annexin A4 that is associated with recurrent spontaneous abortion
Authors: Ye Qian , Liu Fa-Ying , Xia Xiao-Jian , Chen Xiao-Yong , Zou Li , Wu Hui-Min , Li Dan-Dan , Xia Chen-Nian , Huang Ting , Cui Ying , Zou Yang 
Published: September 2024

BackgroundRecurrent spontaneous abortion (RSA) is a multifactorial disease, the exact causes of which are still unknown. Environmental, maternal, and genetic factors have been shown to contribute to this condition. The aim of this study was to investigate the presence of mutations in the ANXA4 gene in patients with RSA.MethodsGenomic DNA was extracted from 325 patients with RSA and 941 control women with a normal reproductive history for whole-exome sequencing (WES). The detected variants were annotated and filtered, and the pathogenicity of the variants was predicted through the SIFT online tool, functional enrichment analyses, Sanger sequencing validation, prediction of changes in protein structure, and evolutionary conservation analysis. Furthermore, plasmid construction, Western blotting, RT–qPCR, and cell migration, invasion and adhesion assays were used to detect the effects of ANXA4 mutations on protein function.ResultsAn ANXA4 mutation (p.G8D) in 1 of the 325 samples from patients with RSA (RSA-219) was identified through WES. This mutation was not detected in 941 controls or included in public databases. Evolutionary conservation analysis revealed that the amino acid residue affected by the mutation (p.G8D) was highly conserved among 13 vertebrate species, and the SIFT program and structural modeling analysis predicted that this mutation was harmful. Furthermore, functional assays revealed that this mutation could inhibit cell migration, invasion and adhesion.ConclusionOur study suggests that an unreported novel ANXA4 mutation (p.G8D) plays an important role in the pathogenesis of RSA and may contribute to the genetic diagnosis of RSA.
Dysregulated mTOR networks in experimental sporadic Alzheimer’s disease
Authors: de la Monte Suzanne M. , Tong Ming 
Published: September 2024

BackgroundBeyond the signature amyloid-beta plaques and neurofibrillary tangles, Alzheimer’s disease (AD) has been shown to exhibit dysregulated metabolic signaling through insulin and insulin-like growth factor (IGF) networks that crosstalk with the mechanistic target of rapamycin (mTOR). Its broad impact on brain structure and function suggests that mTOR is likely an important therapeutic target for AD.ObjectiveThis study characterizes temporal lobe (TL) mTOR signaling abnormalities in a rat model of sporadic AD neurodegeneration.MethodsLong Evans rats were given intracerebroventricular injections of streptozotocin (ic-STZ) or saline (control), and 4 weeks later, they were administered neurobehavioral tests followed by terminal harvesting of the TLs for histopathological study and measurement of AD biomarkers, neuroinflammatory/oxidative stress markers, and total and phosphorylated insulin/IGF-1-Akt-mTOR pathway signaling molecules.ResultsRats treated with ic-STZ exhibited significantly impaired performance on Rotarod (RR) and Morris Water Maze (MWM) tests, brain atrophy, TL and hippocampal neuronal and white matter degeneration, and elevated TL pTau, AβPP, Aβ, AChE, 4-HNE, and GAPDH and reduced ubiquitin, IL-2, IL-6, and IFN-γ immunoreactivities. In addition, ic-STZ reduced TLpY1135/1136-IGF-1R, Akt, PTEN,pS380-PTEN,pS2448-mTOR, p70S6K,pT412-p70S6K, p/T-pT412-p70S6K, p/T-Rictor, and p/T-Raptor.ConclusionExperimental ic-STZ-induced sporadic AD-type neurodegeneration with neurobehavioral dysfunctions associated with inhibition of mTOR signaling networks linked to energy metabolism, plasticity, and white matter integrity.
Puberty interacts with sleep and brain network organization to predict mental health
Authors: Mitchell Mackenzie E. , Nugiel Tehila 
Published: September 2024

IntroductionAlong with pubertal development, the transition to adolescence brings about increased risk for sleep disturbances and mental health problems. Functional connectivity of overlapping large-scale brain networks, such as increased connectivity between the default mode and dorsal attention networks, has been reported to relate to both sleep and mental health problems. Clarifying whether pubertal development interacts with sleep disturbances and functional brain networks to predict mental health may provide information to improve the timing and design of interventions targeting sleep disturbances in adolescents.MethodsTo examine how pubertal status and tempo relate to sleep disturbances and shape the relationship between sleep disturbances and mental health problems, we harnessed a large sample of children aged 10–14 years from the Adolescent Brain and Cognitive Development (ABCD) Study (N ~ 3,000–10,000). We used graph theoretical tools to probe how pubertal development concurrently interacts with sleep disturbances and brain network organization to predict mental health problems.ResultsWe found that advanced pubertal status, but not pubertal tempo, predicted sleep disturbances; however, both pubertal status and tempo interact with sleep disturbances to predict mental health problems and engage in three-way interactions with sleep and brain network organization to predict mental health problems.DiscussionOverall, this work suggests that less advanced pubertal status and slower tempo are risk factors for the strongest links between sleep disturbances, brain organization, and mental health problems. Further, our findings speak to the importance of accounting for interactions in the constellation of factors that surround complex behavioral and clinical syndromes, here internalizing and externalizing disorders, and provide new context to consider for targeted interventions.
Dietary patterns, genetic predisposition, and risk of cholelithiasis: a large-scale prospective cohort study
Authors: Jin Kecheng , Mi Ningning , He Wangping , Zhong Ruyang , Jin Boru , Liu Zhen , Dong Chunlu , Lin Yanyan , Yue Ping , Xia Bin , He Qiangsheng , Yuan Jinqiu , Meng Wenbo 
Published: September 2024

BackgroundLimited epidemiological evidence exists concerning the impact of healthy dietary patterns on reducing the risk of cholelithiasis. We aimed to examine the association of seven established dietary patterns with subsequent cholelithiasis risk and whether this association was modified by genetic risk.MethodsWe conducted a prospective cohort study from the UK Biobank, including 155,323 participants initially free of cholelithiasis and cholecystectomy. Dietary patterns were assessed using a validated food frequency questionnaire (Oxford WebQ), covering Mediterranean Diet Score (MED), alternate Mediterranean Diet Score(aMED), overall Plant-based Diet Index (PDI), healthy Plant-based Diet Index (hPDI), unhealthy Plant-based Diet Index (uPDI), Healthy Eating Index 2015 (HEI-2015) and EAT-lancet Score. Genetic risk was quantified and stratified by a polygenic risk score (PRS) incorporating 13 known cholelithiasis-associated loci. Cox proportional hazards regression was employed to estimate the association between dietary patterns, PRS, and cholelithiasis incidence, adjusting for potential confounders.ResultsDuring a median follow-up of 13.3 years, 5,056 cases of cholelithiasis were identified. After adjusting for potential confounders, adherence to aMED and HEI-2015 dietary patterns reduced cholelithiasis risk by 10% (HR: 0.90; 95%CI: 0.83–0.98) and 11% (HR: 0.89; 95%CI: 0.82–0.96), respectively. A significant decrease in cholelithiasis risk was observed across PRS quintiles, low PRS was associated with a 16% reduced risk (HR: 0.84; 95%CI: 0.77–0.92). Participants with both high dietary scores and low genetic risk had the lowest cholelithiasis risk, with an HR of 0.76 (95%CI: 0.64–0.91) for aMED and 0.73 (95%CI: 0.61–0.88) for HEI-2015.ConclusionHigher adherence to aMED and HEI-2015 might significantly decrease the risk of cholelithiasis, irrespective of genetic risk. Our results highlighted the potential of diet intervention for cholelithiasis prevention in the general population.
On the significance of the different geometrical and dosimetric parameters in microbeam and minibeam radiation therapy a retrospective evaluation
Authors: McGarrigle Josie May , Long Kenneth Richard , Prezado Yolanda 
Published: September 2024

IntroductionSpatially Fractionated Radiation Therapy (SFRT) is an unconventional therapeutic approach with the potential to disrupt the classical paradigms of conventional radiation therapy. The high spatial dose modulation in SFRT is believed to activate distinct radiobiological mechanisms which lead to remarkable increases in normal tissue tolerance. To make optimal use of SFRT and its benefits, a deeper understanding of the biological response and its relationship with the complex dosimetric and geometric components of SFRT is essential.MethodA retrospective evaluation of preclinical studies was conducted to gain insight into the dosimetric and geometric parameters that are most correlated with normal tissue response. Current literature evaluates the response of tissue to MBRT and MRT according to various end points, e.g. the level of desquamation, degree of necrosis, or the amount of malcalcification. A set of metrics was developed to allow a quantitative comparison of these results.ResultsThe strongest correlations were observed with the doses in both the peaks and valleys as well as the ratio of the area covered by the peak over the total area. This emphasises the geometry of the beam. MBRT challenged previous uniform dose-distribution paradigms by highlighting the critical role of Peak Dose alongside Valley Dose in tissue sparing whereas MRT underscores the significant influence of geometric beam parameters on tissue preservation.DiscussionThe data exhibits variability in the results obtained using different animal models and endpoints and additional research is warranted to explore the trends observed in this study under controlled conditions.
Global trends and topics in CDK7 inhibitor research: a bibliometric analysis
Authors: Liu Jiamin , He Ling , Jiang Wenjing , Xie Ping 
Published: September 2024

BackgroundCDK7 has been demonstrated to play a crucial role in the initiation and progression of malignancy. Therefore, targeting CDK7, which regulates the transcription process, has emerged as a new promising approach for treating cancer. Research on CDK7 inhibitors has significantly increased over the past 2 decades, with almost 600 related papers in the Web of Science Core Collection database. To effectively identify future research hotspots and potential future directions, it is crucial to systematically review and visually present the research on this topic from a comprehensive viewpoint, ensuring scientific reliability.MethodsThis study performed bibliometric analysis via CiteSpace and VOSviewer scientometrics analysis software to examine data on the publication of articles on CDK7 inhibitors over the past 2 decades; the data included country of publication, author names, institution names, scientific categories, cited journals, and keywords related to the field of CDK7 inhibitors.ResultsThis bibliometric analysis included 426 publications from 41 different nations, referencing a total of 15,892 sources. Research associated with CDK7 inhibitors has rapidly expanded since 2016, and the US and China are the two countries with the highest publication output among the countries and institutes that produce literature on CDK7 inhibitors. Furthermore, the US is the country that most frequently engages in international cooperation. The evolution of keywords identifying antitumor strategies related to CDK7-mediated cellular transcription processes has been the research focus in recent years.ConclusionIn this study, we identified research efforts and their evolving patterns and predicted advances in the CDK7 inhibitor field. The knowledge structure of CDK7 inhibitors encompasses pharmacological mechanisms, therapeutic targets, and cancer treatment strategies. The primary objectives of contemporary research are to discover the processes underlying cancer progression, identify specific signaling pathways, and develop effective clinical medicines.