bluuebunny/crossref_metadata_2025_split huggingface dataset:
Patient-derived organoids in human cancer: a platform for fundamental research and precision medicine
Authors: Qu Shanqiang , Xu Rongyang , Yi Guozhong , Li Zhiyong , Zhang Huayang , Qi Songtao , Huang Guanglong 
Published: February 2024

AbstractCancer is associated with a high degree of heterogeneity, encompassing both inter- and intra-tumor heterogeneity, along with considerable variability in clinical response to common treatments across patients. Conventional models for tumor research, such as in vitro cell cultures and in vivo animal models, demonstrate significant limitations that fall short of satisfying the research requisites. Patient-derived tumor organoids, which recapitulate the structures, specific functions, molecular characteristics, genomics alterations and expression profiles of primary tumors. They have been efficaciously implemented in illness portrayal, mechanism exploration, high-throughput drug screening and assessment, discovery of innovative therapeutic targets and potential compounds, and customized treatment regimen for cancer patients. In contrast to conventional models, tumor organoids offer an intuitive, dependable, and efficient in vitro research model by conserving the phenotypic, genetic diversity, and mutational attributes of the originating tumor. Nevertheless, the organoid technology also confronts the bottlenecks and challenges, such as how to comprehensively reflect intra-tumor heterogeneity, tumor microenvironment, tumor angiogenesis, reduce research costs, and establish standardized construction processes while retaining reliability. This review extensively examines the use of tumor organoid techniques in fundamental research and precision medicine. It emphasizes the importance of patient-derived tumor organoid biobanks for drug development, screening, safety evaluation, and personalized medicine. Additionally, it evaluates the application of organoid technology as an experimental tumor model to better understand the molecular mechanisms of tumor. The intent of this review is to explicate the significance of tumor organoids in cancer research and to present new avenues for the future of tumor research.
LFSPROShiny: An Interactive R/Shiny App for Prediction and Visualization of Cancer Risks in Families With Deleterious Germline TP53 Mutations
Authors: Nguyen Nam H. , Dodd-Eaton Elissa B. , Peng Gang , Corredor Jessica L. , Jiao Wenwei , Woodman-Ross Jacynda , Arun Banu K. , Wang Wenyi 
Published: February 2024

PURPOSE LFSPRO is an R library that implements risk prediction models for Li-Fraumeni syndrome (LFS), a genetic disorder characterized by deleterious germline mutations in the TP53 gene. To facilitate the use of these models in clinics, we developed LFSPROShiny, an interactive R/Shiny interface of LFSPRO that allows genetic counselors (GCs) to perform risk predictions without any programming components and further visualize the risk profiles of their patients to aid the decision-making process. METHODS LFSPROShiny implements two models that have been validated on multiple LFS patient cohorts: a competing risk model that predicts cancer-specific risks for the first primary and a recurrent-event model that predicts the risk of a second primary tumor. Starting with a visualization template, we keep regular contact with GCs, who ran LFSPROShiny in their counseling sessions, to collect feedback and discuss potential improvement. On receiving the family history as input, LFSPROShiny renders the family into a pedigree and displays the risk estimates of the family members in a tabular format. The software offers interactive overlaid side-by-side bar charts for visualization of the patients' cancer risks relative to the general population. RESULTS We walk through a detailed example to illustrate how GCs can run LFSPROShiny in clinics from data preparation to downstream analyses and interpretation of results with an emphasis on the utilities that LFSPROShiny provides to aid decision making. CONCLUSION Since December 2021, we have applied LFSPROShiny to over 100 families from counseling sessions at the MD Anderson Cancer Center. Our study suggests that software tools with easy-to-use interfaces are crucial for the dissemination of risk prediction models in clinical settings, hence serving as a guideline for future development of similar models.
Carotid Intima-Media Thickness in Surgically or Conservatively Managed Patients With Primary Hyperparathyroidism
Authors: Carnevale Vincenzo , Pugliese Flavia , Eller-Vainicher Cristina , Salcuni Antonio S , Nieddu Luciano , Chiodini Iacopo , Scillitani Alfredo 
Published: February 2024

Abstract

Context
Current evidence of cardiovascular (CV) risk in primary hyperparathyroidism (PHPT) is still inconsistent.

Objective
To prospectively investigate changes of early atherosclerosis in patients with PHPT undergoing parathyroidectomy (PTx) or conservative management, according to consensus criteria.

Methods
Biochemical parameters of PHPT, CV risk factors (systolic and diastolic blood pressure, cholesterol [total, high-density, and low-density], triglyceride, HbA1c, HOMA-IR), and carotid intima-media thickness (IMT) and plaque were assessed in 52 consecutive postmenopausal PHPT patients both at baseline and ≥ 24 months after surgery (PTx, n = 22) or conservative management (non-PTx, n = 30).

Results
At baseline, PTx and non-PTx showed comparable age, BMI, renal function, and 25(OH)D levels, and did not differ for CV risk factors, IMT and plaques, or for prevalence of smoking, diabetes mellitus, or antihypertensive or statin therapy, while all parameters characterizing PHPT differed. Follow-up duration in PTx was longer than in non-PTx (P = .004). Parameters characterizing PHPT significantly improved ≥ 24 months after surgery, whereas in non-PTx serum phosphate slightly decreased and parathyroid hormone increased. Systolic and diastolic blood pressure increased at follow-up in both groups, while other CV risk factors did not significantly vary. In PTx, IMT did not significantly vary after surgery (0.85 ± 0.14 to 0.89 ± 0.22 mm, P = .366), whereas it significantly increased in non-PTx (0.80 ± 0.18 to 0.93 ± 0.23 mm, P = .008), even adjusting for blood pressure. Plaque prevalence and incidence did not significantly differ in the 2 groups.

Conclusion
Our results suggest that in postmenopausal patients with PHPT, subclinical atherosclerosis could be halted by PTx, whereas it worsens over time in nonoperated patients with milder disease.
The first report of Candida auris infection in Vietnam
Authors: Dang-Vu Thong , Lam-Quoc Dung , Duong-Minh Ngoc , Vu Ha , Nguyen-Ho Lam , Truong-Thien Phu , Nguyen-Dang Khoa 
Published: February 2024

Infection caused by Candida auris has rapidly become a global health threat. C. auris created a significant healthcare burden due to various complicating factors, including misidentification by commercial identification methods, potent antifungal resistance, high mortality rates and the possibility of nosocomial outbreaks through direct contact. In Vietnam, there are currently no clinical reports on C. auris infections. Here, we present four clinical cases of C. auris infections in the Department of Pulmonary Medicine of Cho Ray Hospital in southern Vietnam. Through this report, we aim to highlight the attention to the emergence of C. auris in Vietnam. Further research on C. auris infections is warranted, focusing on newly observed clinical characteristics present in all cases in this report, including hypoalbuminaemia and corticosteroid usage. Moreover, one case of resistance to amphotericin B has been identified, possibly due to prior exposure to this antifungal agent.
Treatment Decision for Locally Resected T1 Colorectal Carcinoma–Verification of the Japanese Guideline Criteria for Additional Surgery Based on Long-Term Clinical Outcomes
Authors: Oka Shiro , Tanaka Shinji , Kajiwara Yoshiki , Saito Shoichi , Fukunaga Yosuke , Takamatsu Manabu , Kawachi Hiroshi , Hotta Kinich , Ikematsu Hiroaki , Kojima Motohiro , Saito Yutaka , Yamada Masayoshi , Kanemitsu Yukihide , Sekine Shigeki , Nagata Shinji , Yamada Kazutaka , Kobayashi Nozomu , Ishihara Soichiro , Saitoh Yusuke , Matsuda Kenji , Togashi Kazutomo , Komori Koji , Ishiguro Megumi , Kuwai Toshio , Okuyama Takashi , Ohuchi Akihiro , Ohnuma Shinobu , Sakamoto Kazuhiro , Sugai Tamotsu , Katsumata Kenji , Matsushita Hiro-o , Yamano Hiro-o , Eda Hirotsugu , Uraoka Toshio , Akimoto Naohiko , Kobayashi Hirotoshi , Sugihara Kenichi , Ueno Hideki 
Published: February 2024

INTRODUCTION:
To verify the value of the pathological criteria for additional treatment in locally resected pT1 colorectal carcinoma (CRC) which have been used in the Japanese Society for Cancer of the Colon and Rectum (JSCCR) guidelines since 2009.

METHODS:
We enrolled 4,667 patients with pT1 CRC treated at 27 institutions between July 2009 and December 2016 (1,257 patients with local resection alone [group A], 1,512 patients with additional surgery after local resection [group B], and 1,898 patients with surgery alone [group C]). All 5 factors of the JSCCR guidelines (submucosal resection margin, tumor histologic grade, submucosal invasion depth, lymphovascular invasion, and tumor budding) for lymph node metastasis (LNM) had been diagnosed prospectively.

RESULTS:
Any of the risk factors were present in 3,751 patients. The LNM incidence was 10.4% (95% confidence interval 9.4–11.5) in group B/C patients with risk factors, whereas it was 1.8% (95% confidence interval 0.4–5.3) in those without risk factors (P < 0.01). In group A, the incidence of recurrence was 3.6% in patients with risk factors, but it was only 0.4% in patients without risk factors (P < 0.01). The disease-free survival rate of group A patients classified as risk positive was significantly worse than those of groups B and C patients. However, the 5-year disease-free survival rate in group A patients with no risk was 99.6%.

DISCUSSION:
Our large-scale real-world multicenter study demonstrated the validity of the JSCCR criteria for pT1 CRC after local resection, especially regarding favorable outcomes in patients with low risk of LNM.
A Clinicopathological Appraisal of Duodenal Neuroendocrine Tumors at a Racially Diverse Safety Net Hospital
Authors: Shaikh Sofia D. , Jacoba Isa , Sun Natalie , Chung Enoch , Kim Haesook T. , Zhao Qing , Weber H. Christian 
Published: February 2024

INTRODUCTION:
Significant knowledge gaps exist regarding clinicopathological profiling as well as treatment, surveillance, and survival of duodenal neuroendocrine tumors (dNETs).

METHODS:
We clinicopathologically characterized and identified racial differences among patients with dNETs at a large safety net hospital. Tumor grades were updated based on the World Health Organization 2019 NET classification, and overall survival was determined.

RESULTS:
We identified 17 dNETs and found no differences in clinicopathologic characteristics across racial groups. Pathological diagnosis was upgraded in 35% of dNETs, and age >65 years significantly shortened overall survival.

DISCUSSION:
Larger-scale studies are needed to determine the significance of these findings.
Short‐chain mono‐carboxylates as negative modulators of allosteric transitions in Gloeobacter violaceus ligand‐gated ion channel, and impact of a pre‐β5 strand (Loop Ω) double mutation on crotonate, not butyrate effect
Authors: Van Renterghem Catherine , Nemecz Ákos , Medjebeur Karima , Corringer Pierre‐Jean 
Published: February 2024

AbstractUsing the bacterial proton‐activated pentameric receptor‐channel Gloeobacter violaceus ligand‐gated ion channel (GLIC): (1) We characterize saturated, mono‐carboxylates as negative modulators of GLIC (as previously shown for crotonate; Alqazzaz et al., Biochemistry, 2016, 55, 5947). Butyrate and crotonate have indistinguishable properties regarding negative modulation of wt GLIC. (2) We identify a locus in the pre‐β5 strand (Loop Ω) whose mutation inverses the effect of the mono‐carboxylate crotonate from negative to positive modulation of the allosteric transitions, suggesting an involvement of the pre‐β5 strand in coupling the extracellular orthotopic receptor to pore gating. (3) As an extension to the previously proposed “in series” mechanism, we suggest that a orthotopic/orthosteric site—vestibular site—Loop Ω—β5‐β6 “sandwich”—Pro‐Loop/Cys‐Loop series may be an essential component of orthotopic/orthosteric compound‐elicited gating control in this pentameric ligand‐gated ion channel, on top of which compounds targeting the vestibular site may provide modulation.
Antitumor activity of 5-hydroxy-3′,4′,6,7-tetramethoxyflavone in glioblastoma cell lines and its antagonism with radiotherapy
Authors: Papapetrou Panagiota , Dimitriadis Kyriakos , Galani Vasiliki , Zoi Vasiliki , Giannakopoulou Maria , Papathanasopoulou Vasiliki A. , Sioka Chrissa , Tsekeris Pericles , Kyritsis Athanassios P. , Lazari Diamanto , Alexiou George A. 
Published: February 2024

Abstract
5-Hydroxy-3′,4′,6,7-tetramethoxyflavone (TMF) is a plant-origin flavone known for its anti-cancer properties. In the present study, the cytotoxic effect of TMF was evaluated in the U87MG and T98G glioblastoma (GBM) cell lines. The effect of TMF on cell viability was assessed with trypan blue exclusion assay and crystal violet staining. In addition, flow cytometry was performed to examine its effect on the different phases of the cell cycle, and in vitro scratch wound assay assessed the migratory capacity of the treated cells. Furthermore, the effect of in vitro radiotherapy was also evaluated with a combination of TMF and radiation. In both cell lines, TMF treatment resulted in G0/G1 cell cycle arrest, reduced cell viability, and reduced cell migratory capacity. In contrast, there was an antagonistic property of TMF treatment with radiotherapy. These results demonstrated the antineoplastic effect of TMF in GBM cells in vitro, but the antagonistic effect with radiotherapy indicated that TMF should be further evaluated for its possible antitumor role post-radiotherapy.
Silicotungstic acid supported on Bi-based MOF-derived metal oxide for photodegradation of organic dyes
Authors: Zhang Qiuyun , Luo Linmin , Lei Yanhui , Xie Feiran , Li Weihua , Zhao Yongting , Wang Jialu , Zhang Yutao 
Published: February 2024

Abstract
In this article, Bi-based metal–organic framework-supported silicotungstic acid (STA) was synthesized by a simple hydrothermal method and used as a precursor for the preparation of the Bi-based MOF-derived catalyst (STA@C-Bi-BDC). Using a combination of FTIR, XRD, SEM-EDS, N2 adsorption–desorption, TG, UV-Vis DRS, and XPS techniques, the successful immobilization of STA groups on Bi-MOF-derived C-Bi-BDC was assessed. Furthermore, the photocatalytic performance of the as-prepared catalysts was investigated in the degradation of the RhB dye process under visible light. Within 120 min of visible light exposure, the high degradation rate of RhB (92.7%) by STA@C-Bi-BDC system was achieved, which was a lot larger than the STA (39.4%), C-Bi-BDC (59.2%), and STA@Bi-BDC (74.0%) system, and cyclic experiments exhibit that the STA@C-Bi-BDC is a relatively stable photocatalyst. More importantly, the catalyst shows high applicability for the degradation of other dyes. This study reveals a comprehensive strategy for the design of efficient Bi-based MOF-derived photocatalyst for organic dye-based wastewater treatment.
Late diagnosis of the X-linked MCT8 deficiency (Allan–Herndon–Dudley syndrome) in a teenage girl with primary ovarian insufficiency
Authors: Sriram Swetha , Shahid Nabiha , Mysliwiec D Diana , Lichter-Konecki Uta , Yatsenko Svetlana A. , Garibaldi Luigi R. 
Published: February 2024

Abstract

Objectives
To report an unusual case of MCT8 deficiency (Allan–Herndon–Dudley syndrome), an X-linked condition caused by pathogenic variants in the SLC16A2 gene. Defective transport of thyroid hormones (THs) in this condition leads to severe neurodevelopmental impairment in males, while heterozygous females are usually asymptomatic or have mild TH abnormalities.

Case presentation
A girl with profound developmental delay, epilepsy, primary amenorrhea, elevated T3, low T4 and free T4 levels was diagnosed with MCT8-deficiency at age 17 years, during evaluation for primary ovarian insufficiency (POI). Cytogenetic analysis demonstrated balanced t(X;16)(q13.2;q12.1) translocation with a breakpoint disrupting SLC16A2. X-chromosome inactivation studies revealed a skewed inactivation of the normal X chromosome.

Conclusions
MCT8-deficiency can manifest clinically and phenotypically in women with SLC16A2 aberrations when nonrandom X inactivation occurs, while lack of X chromosome integrity due to translocation can cause POI.
The importance of professional responsibility and fetal viability in the management of abortion
Authors: Chervenak Frank , McLeod-Sordjan Renee , Moreno Jonathan D. , Pollet Susan , Bornstein Eran , Dudenhausen Joachim , Grünebaum Amos 
Published: February 2024

Abstract
In June 2022, the Dobbs v. Jackson Women’s Health Organization Supreme Court decision ended the constitutional right to the professional practice of abortion throughout the United States. The removal of the constitutional right to abortion has significantly altered the practice of obstetricians and gynecologists across the US. It potentially increases risks to pregnant patients, leads to profound changes in how physicians can provide care, especially in states with strict bans or gestational limits to abortion, and has introduced personal challenges, including moral distress and injury as well as legal risks for patients and clinicians alike. The professional responsibility model is based on the ethical concept of medicine as a profession and has been influential in shaping medical ethics in the field of obstetrics and gynecology. It provides the framework for the importance of ethical and professional conduct in obstetrics and gynecology. Viability marks a stage where the fetus is a patient with a claim to access to medical care. By allowing unrestricted abortions past this stage without adequate justifications, such as those concerning the life and health of the pregnant individual, or in instances of serious fetal anomalies, the states may not be upholding the equitable ethical consideration owed to the fetus as a patient. Using the professional responsibility model, we emphasize the need for nuanced, evidence-based policies that allow abortion management prior to viability without restrictions and allow abortion after viability to protect the pregnant patient’s life and health, as well as permitting abortion for serious fetal anomalies.
Implication as Inclusion and the Causal Asymmetry
Authors: Saudek Daniel 
Published: February 2024

Abstract
How does causation in the physical world relate to implication in logic? This article presents implication as fundamentally a relation of inclusion between propositions. Given this, it is argued that an event cannot “causally imply” another, also given the laws of nature. Then, by applying the notion of inclusion to physical objects, a relation “within the possibilities of” is developed, which generates a partial order on sets of entities and is independent of time. Based on this, it is shown that changes of physical objects in time (at any rate, a great many of them) imply, and thus counterfactually depend on, what we call “causes” – an asymmetric dependence which is robust despite the perspectival nature of the concept of “cause”.
Asymmetrical novel hyperchaotic system with two exponential functions and an application to image encryption
Authors: Shukur Ali A. , AlFallooji Mohanad A. , Pham Viet-Thanh 
Published: February 2024

Abstract
In this article, asymmetrical novel system with two exponential functions, which can show hyperchaotic behavior, has been proposed. Although new system possesses only one unstable equilibrium. The dynamical behaviors of such system are discovered by computing the Lyapunov exponents and bifurcation diagram. Furthermore, the synchronization of the proposed system are also presented by an adaptive synchronization approach of two identical hyperchaotic systems. An application to image encryption has been obtained.
A comprehensive review of noise pollution monitoring studies at bus transit terminals
Authors: Kumari Supriya , Sharma Anjali , Ghosh Ashok Kumar 
Published: February 2024

Abstract
This article systematically reviews research on noise pollution monitoring conducted over the past 23 years at various bus transit terminals located worldwide. About 18 articles were identified using PRISMA method and were evaluated to provide summary of prior research work to examine accuracy, authenticity, and reliability of noise monitoring results with respect to chosen methodology and extent of noise pollution at bus transit terminals. It examines important indicators of noise pollution and the analysis parameters such as noise sampling, noise descriptors, processing of acquired data, noise mapping, etc., and compares it with the regulations and standard guidelines notably ISO 1996-2:2017 and American National Standards Institute/ASA S12.18-1994 (R2009) and their prior versions aiming to identify research gaps. The studies have primarily focused on noise monitoring, revealing widespread excessive noise pollution exceeding permissible levels at bus terminals globally. This article underscores significant research deficiencies in noise pollution monitoring at bus terminals, emphasizing the challenge of conducting quantitative meta-analyses and statistical comparisons due to variations in parameters and qualities. Noise pollution standards are breached in all terminals covered in the identified literature; hence, noise mitigation measures must be implemented at these bus terminals. The study suggests that noise monitoring must be carefully devised with respect to individual site operations and noise sources and in compliance with standard guidelines to improve the accuracy of the results. There is a need for uniform guidelines that can be followed globally for environmental noise monitoring as there are only a few countries that have guidelines for noise monitoring. The outcomes of this research will be helpful in guiding noise monitoring, mapping, and mitigation strategies as well as designing transit terminals to improve overall acoustical ambiance for more passenger footfall for sustainable transportation.
Biology of Spodoptera frugiperda (Lepidoptera: Noctuidae) on different types of plants feeds: Potency as a pest on various agricultural plants
Authors: Dono Danar , Wulansari Retno , Hidayat Yusup , Widayani Neneng Sri 
Published: February 2024

Abstract

Spodoptera frugiperda is a new invasive and highly polyphagous pest that attacks corn in Indonesia. The availability of abundant plant species allows pests to switch to other host plants to maintain their population. The aim of this research is to examine the development, reproduction, nutritional indices, and life table of S. frugiperda in several plant species. The plants tested were corn, rice, broccoli, oil palm, and baby corn as controls. Ten individual insects were used and the experiments were repeated five times for each plant species. The test results show that different types of plant feed affect the development time, imago life span, fecundity, and fertility of S. frugiperda. Baby corn fruit and broccoli had higher net reproduction value (R
0), intrinsic growth rate (r), gross reproduction rate (GRR), shorter mean generation period (T), and population doubling time (DT) than corn and rice leaves. On oil palm leaf feed, no population parameters could be determined because no larvae developed into adults and had the lowest nutritional indices parameters, so that, oil palm could not be exploited as a host plant. Also, the nutritional indices of several feed plant species tested provided information that broccoli could be the most suitable host compared to other plants tested when there was no corn in the field.