bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cholesterol-modified prognostic nutritional index (CPNI) as an effective tool for assessing the nutrition status and predicting survival in patients with breast cancer
Authors: Shi Jinyu , Liu Tong , Ge Yizhong , Liu Chenan , Zhang Qi , Xie Hailun , Ruan Guotian , Lin Shiqi , Zheng Xin , Chen Yue , Zhang Heyang , Song Mengmeng , Zhang Xiaowei , Hu Chunlei , Li Xiangrui , Yang Ming , Liu Xiaoyue , Deng Li , Shi Hanping 
Published: December 2023

Abstract
Background
Malnutrition is associated with poor overall survival (OS) in breast cancer patients; however, the most predictive nutritional indicators for the prognosis of patients with breast cancer are not well-established. This study aimed to compare the predictive effects of common nutritional indicators on OS and to refine existing nutritional indicators, thereby identifying a more effective nutritional evaluation indicator for predicting the prognosis in breast cancer patients.

Methods
This prospective study analyzed data from 776 breast cancer patients enrolled in the “Investigation on Nutritional Status and its Clinical Outcome of Common Cancers” (INSCOC) project, which was conducted in 40 hospitals in China. We used the time-dependent receiver operating characteristic curve (ROC), Kaplan–Meier survival curve, and Cox regression analysis to evaluate the predictive effects of several nutritional assessments. These assessments included the patient-generated subjective nutrition assessment (PGSGA), the global leadership initiative on malnutrition (GLIM), the controlling nutritional status (CONUT), the nutritional risk index (NRI), and the prognostic nutritional index (PNI). Utilizing machine learning, these nutritional indicators were screened through single-factor analysis, and relatively important variables were selected to modify the PNI. The modified PNI, termed the cholesterol-modified prognostic nutritional index (CPNI), was evaluated for its predictive effect on the prognosis of patients.

Results
Among the nutritional assessments (including PGSGA, GLIM, CONUT, NRI, and PNI), PNI showed the highest predictive ability for patient prognosis (time-dependent ROC = 0.58). CPNI, which evolved from PNI, emerged as the superior nutritional index for OS in breast cancer patients, with the time-dependent ROC of 0.65. It also acted as an independent risk factor for mortality (p < 0.05). Moreover, the risk of malnutrition and mortality was observed to increase gradually among both premenopausal and postmenopausal age women, as well as among women categorized as non-overweight, overweight, and obese.

Conclusions
The CPNI proves to be an effective nutritional assessment tool for predicting the prognosis of patients with breast cancer.
Novel pathogenic variant in MED12 causing non-syndromic dilated cardiomyopathy
Authors: Ghasemi Serwa , Mahdavi Mohammad , Maleki Majid , Salahshourifar Iman , Kalayinia Samira 
Published: December 2023

Abstract
Background
Dilated cardiomyopathy (DCM) is a major cause of sudden cardiac death and heart failure. Up to 50% of all DCM cases have a genetic background, with variants in over 250 genes reported in association with DCM. Whole-exome sequencing (WES) is a powerful tool to identify variants underlying genetic cardiomyopathies. Via WES, we sought to identify DCM causes in a family with 2 affected patients.

Methods
WES was performed on the affected members of an Iranian family to identify the genetic etiology of DCM. The candidate variant was segregated via polymerase chain reaction and Sanger sequencing. Computational modeling and protein-protein docking were performed to survey the impact of the variant on the structure and function of the protein.

Results
A novel single-nucleotide substitution (G > A) in exon 9 of MED12, c.1249G > A: p.Val417Ile, NM_005120.3, was identified. The c.1249G > A variant was validated in the family. Bioinformatic analysis and computational modeling confirmed that c.1249G > A was the pathogenic variant responsible for the DCM phenotype.

Conclusion
We detected a novel DCM-causing variant in MED12 using WES. The variant in MED12 may decrease binding to cyclin-dependent kinase 8 (CDK8), affect its activation, and cause alterations in calcium-handling gene expression in the heart, leading to DCM.
A RBM47 and IGF2BP1 mediated circular FNDC3B-FNDC3B mRNA imbalance is involved in the malignant processes of osteosarcoma
Authors: Li Congya , Ding Linchao , Wang Xuyao , Shu Peng , Shi Xuchao , Zheng Zhijian , Liu Jian , Zhu Junlan 
Published: December 2023

Abstract
Background
Circular RNAs (circRNAs) are a class of noncoding RNAs that are involved in the progression of many human cancers. The precise gene locus and the roles of circular RNA from Fibronectin type III domain containing 3B (FNDC3B) in OS and its mechanisms of action have not been fully explored.

Materials and methods
qRT-qPCR assay was used to determine gene expressions. CCK8 Assay, EdU assay, wound-healing assay, transwell invasion assay and in vivo xenograft assay were used to perform functional investigations. RNA-FISH, immunofluorescence, RIP assay, RNA stability analysis were applied in mechanistic studies.

Results
We found that circFNDC3B downregulated and FNDC3B mRNA upregulated in OS, and might be potential biomarkers for indicating disease progression and prognosis of OS patients. CircFNDC3B acted as a tumor suppressor gene to restrain OS progression and FNDC3B functioned as an oncogene to promote OS progression in vitro and in vivo. RNA binding protein RNA binding motif protein 47 (RBM47) could bind to the flanking introns of circFNDC3B to facilitate the generation of circFNDC3B, resulting in the reduction of FNDC3B mRNA and the circFNDC3B-FNDC3B mRNA imbalance. CircFNDC3B also inhibited FNDC3B mRNA expression by reducing its stability via competitively binding to Insulin-like growth-factor-2 mRNA binding protein (IGF2BP1).

Conclusion
This study demonstrated that RBM47 and IGF2BP1 mediated circular FNDC3B/FNDC3B mRNA imbalance was involved in the malignant processes of OS.
Development and validation of a prediction model on spontaneous preterm birth in twin pregnancy: a retrospective cohort study
Authors: Yang Xiaofeng , Zhong Qimei , Li Li , Chen Ya , Tang Chunyan , Liu Ting , Luo Shujuan , Xiong Jing , Wang Lan 
Published: December 2023

AbstractBackgroundThis study was conducted to develop and validate an individualized prediction model for spontaneous preterm birth (sPTB) in twin pregnancies.MethodsThis a retrospective cohort study included 3845 patients who gave birth at the Chongqing Maternal and Child Health Hospital from January 2017 to December 2022. Both univariable and multivariable logistic regression analyses were performed to find factors associated with sPTB. The associations were estimated using the odds ratio (OR) and the 95% confidence interval (CI). Model performance was estimated using sensitivity, specificity, accuracy, area under the receiver operating characteristic curve (AUC) and decision curve analysis (DCA).ResultsA total of 1313 and 564 cases were included in the training and testing sets, respectively. In the training set, univariate and multivariate logistic regression analysis indicated that age ≥ 35 years (OR, 2.28; 95% CI 1.67–3.13), pre-pregnancy underweight (OR, 2.36; 95% CI 1.60–3.47), pre-pregnancy overweight (OR, 1.67; 95% CI 1.09–2.56), and obesity (OR, 10.45; 95% CI, 3.91–27.87), nulliparity (OR, 0.58; 95% CI 0.41–0.82), pre-pregnancy diabetes (OR, 5.81; 95% CI 3.24–10.39), pre-pregnancy hypertension (OR, 2.79; 95% CI 1.44–5.41), and cervical incompetence (OR, 5.12; 95% CI 3.08–8.48) are independent risk factors for sPTB in twin pregnancies. The AUC of the training and validation set was 0.71 (95% CI 0.68–0.74) and 0.68 (95% CI 0.64–0.73), respectively. And then we integrated those risk factors to construct the nomogram.ConclusionsThe nomogram developed for predicting the risk of sPTB in pregnant women with twins demonstrated good performance. The prediction nomogram serves as a practical tool by including all necessary predictors that are readily accessible to practitioners.
Imaging the neurovascular unit in health and neurodegeneration: a scoping review of interdependencies between MRI measures
Authors: Rowsthorn Ella , Pham William , Nazem-Zadeh Mohammad-Reza , Law Meng , Pase Matthew P. , Harding Ian H. 
Published: December 2023

AbstractThe neurovascular unit (NVU) is a complex structure that facilitates nutrient delivery and metabolic waste clearance, forms the blood–brain barrier (BBB), and supports fluid homeostasis in the brain. The integrity of NVU subcomponents can be measured in vivo using magnetic resonance imaging (MRI), including quantification of enlarged perivascular spaces (ePVS), BBB permeability, cerebral perfusion and extracellular free water. The breakdown of NVU subparts is individually associated with aging, pathology, and cognition. However, how these subcomponents interact as a system, and how interdependencies are impacted by pathology remains unclear. This systematic scoping review identified 26 studies that investigated the inter-relationships between multiple subcomponents of the NVU in nonclinical and neurodegenerative populations using MRI. A further 112 studies investigated associations between the NVU and white matter hyperintensities (WMH). We identify two putative clusters of NVU interdependencies: a ‘vascular’ cluster comprising BBB permeability, perfusion and basal ganglia ePVS; and a ‘fluid’ cluster comprising ePVS, free water and WMH. Emerging evidence suggests that subcomponent coupling within these clusters may be differentially related to aging, neurovascular injury or neurodegenerative pathology.
3D-printed PCL/β-TCP/CS composite artificial bone and histocompatibility study
Authors: Zheng Chao , Zhang Mingman 
Published: December 2023

Abstract
Background
Tissue-engineered bone materials are an effective tool to repair bone defects. In this study, a novel biodegradable polycaprolactone (PCL)/β-tricalcium phosphate (β-TCP)/calcium sulfate (CS) composite scaffold was prepared by using three-dimensional (3D) printing technology.

Methods
Scanning electron microscopy, gas expansion displacement, and contact goniometry were used to examine the 3D-printed PCL/β-TCP/CS composite scaffolds. The results showed that the PCL/β-TCP/CS scaffolds possessed controllable porosity, hydrophobicity, biodegradability, and suitable apatite mineralization ability. To confirm the bone regenerative properties of the fabricated composite scaffolds, scaffold extracts were prepared and evaluated for their cytotoxicity to bone marrow mesenchymal stem cells (BMSCs) and their ability to induce and osteogenic differentiation in BMSCs.

Results
The PCL/β-TCP/CS composite scaffolds induced a higher level of differentiation of BMSCs than the PCL scaffolds, which occurred through the expression of bone metastasis-related genes. The New Zealand white rabbit radial defect experiment further demonstrated that PCL/β-TCP/CS scaffolds could promote bone regeneration.

Conclusions
In summary, the 3D-printed PCL/β-TCP/CS composite porous artificial bone has good cytocompatibility, osteoinductivity, and histocompatibility, which make it an ideal bone material for tissue engineering.
Links between mental health problems and future thinking from the perspective of adolescents with experience of depression and anxiety: a qualitative study
Authors: Tang Peiyao , Pavlopoulou Georgia , Kostyrka-Allchorne Katarzyna , Phillips-Owen Jacqueline , Sonuga-Barke Edmund 
Published: December 2023

AbstractBackgroundDepression and anxiety are common during adolescence and could have detrimental impacts on young people’s ability to make and implement plans for their future. However, to the best of our knowledge, no other study has adopted a qualitative approach in investigating these effects from the perspective of adolescents with lived experiences of depression and anxiety. We sought to understand how young people perceive and interpret the impact of mental health conditions on their thinking about the future.MethodsWe conducted semi-structured interviews with 19 adolescents aged 16–19 years in the UK (median age = 19, IQR = 1.5), who had a history of protracted periods of clinical or subclinical depression and/or anxiety. They were asked to reflect on how their ability to think about the future and the content of the future-related thinking was impacted during periods of poor mental health, compared with periods of feeling well. Interviews were transcribed verbatim and subjected to thematic content analysis.ResultsFive domains were identified. First,the impact of mood on future thinking capabilityfocuses on reduced ability and motivation to engage in future thinking. Second,the impact of mood on images, thoughts, and feelings about the futureincludes the emotional valence of future-related thoughts, their vividness, structure, and the extent to which they intimated subjective feelings of control (i.e., agency). Third,social influencesfocuses on social factors that might ameliorate or exacerbate future thinking. Fourth,reflections on personal worries and expectations about the futurecaptures personal interpretations of past worries and hopes and how future thinking affected mood. Finally,personal copingrefers to how young people cope with the negative emotions that come with future thinking.ConclusionsThis study provided a nuanced and granular account of how depression and anxiety impacted young people’s future thinking based on their lived experiences. By highlighting the different ways that variations in future thinking were experienced as a function of depression and anxiety, our analysis highlighted new factors that should be considered in studies of adolescent mental health risk, which could inform the development of new therapeutic approaches.
Feasibility and effectiveness of automatic deep learning network and radiomics models for differentiating tumor stroma ratio in pancreatic ductal adenocarcinoma
Authors: Liao Hongfan , Yuan Jiang , Liu Chunhua , Zhang Jiao , Yang Yaying , Liang Hongwei , Jiang Song , Chen Shanxiong , Li Yongmei , Liu Yanbing 
Published: December 2023

Abstract
Objective
This study aims to compare the feasibility and effectiveness of automatic deep learning network and radiomics models in differentiating low tumor stroma ratio (TSR) from high TSR in pancreatic ductal adenocarcinoma (PDAC).

Methods
A retrospective analysis was conducted on a total of 207 PDAC patients from three centers (training cohort: n = 160; test cohort: n = 47). TSR was assessed on hematoxylin and eosin-stained specimens by experienced pathologists and divided as low TSR and high TSR. Deep learning and radiomics models were developed including ShuffulNetV2, Xception, MobileNetV3, ResNet18, support vector machine (SVM), k-nearest neighbor (KNN), random forest (RF), and logistic regression (LR). Additionally, the clinical models were constructed through univariate and multivariate logistic regression. Kaplan–Meier survival analysis and log-rank tests were conducted to compare the overall survival time between different TSR groups.

Results
To differentiate low TSR from high TSR, the deep learning models based on ShuffulNetV2, Xception, MobileNetV3, and ResNet18 achieved AUCs of 0.846, 0.924, 0.930, and 0.941, respectively, outperforming the radiomics models based on SVM, KNN, RF, and LR with AUCs of 0.739, 0.717, 0.763, and 0.756, respectively. Resnet 18 achieved the best predictive performance. The clinical model based on T stage alone performed worse than deep learning models and radiomics models. The survival analysis based on 142 of the 207 patients demonstrated that patients with low TSR had longer overall survival.

Conclusions
Deep learning models demonstrate feasibility and superiority over radiomics in differentiating TSR in PDAC. The tumor stroma ratio in the PDAC microenvironment plays a significant role in determining prognosis.

Critical relevance statement
The objective was to compare the feasibility and effectiveness of automatic deep learning networks and radiomics models in identifying the tumor-stroma ratio in pancreatic ductal adenocarcinoma. Our findings demonstrate deep learning models exhibited superior performance compared to traditional radiomics models.

Key points
• Deep learning demonstrates better performance than radiomics in differentiating tumor-stroma ratio in pancreatic ductal adenocarcinoma.
• The tumor-stroma ratio in the pancreatic ductal adenocarcinoma microenvironment plays a protective role in prognosis.
• Preoperative prediction of tumor-stroma ratio contributes to clinical decision-making and guiding precise medicine.

Graphical Abstract
Association between erythrocyte membrane fatty acids and gut bacteria in obesity-related cognitive dysfunction
Authors: Zhao Tong , Huang Hongying , Li Jinchen , Shen Jingyi , Zhou Cui , Xiao Rong , Ma Weiwei 
Published: December 2023

AbstractObesity increases the risk of cognitive impairment and dementia, and the gut microbiota can affect brain cognitive function and obesity through a variety of pathways such as the gut-brain axis. This study aimed to discover how fatty acid affect cognitive function by regulating intestinal flora in obesity. Obese subjects were recruited for cognitive function assessment, and participants were divided into obese group with cognitive impairment (MCI, n = 49) and obese cognitively normal group (Non_MCI, n = 55). In the erythrocyte membrane, the proportion of polyunsaturated fatty acids (PUFA), linoleic acid (C18:2 n-6) and arachidonic acid (C20:4 n-6) and n-6/n-3 ratio was higher in the MCI group than in the Non_MCI group. However, the α-linolenic acid (C18:3 n-3) percentage of the erythrocyte membrane was lower in the MCI group. We found that Coriobacteriales_Incertae_Sedis was positively correlated with erythrocyte membrane C20:4 n-6 and n-6 PUFA and negatively correlated with cognitive scores in obese patients. In addition, several of the functional pathways we predicted were significantly different in the MCI and Non_MCI groups. Higher levels of n-6/n-3 polyunsaturated fatty acids ratio in the erythrocyte membranes may influence the inflammatory response in the organism causing obesity induced cognitive damage. Moreover, high levels of n-6/n-3 polyunsaturated fatty acids ratio may also affect the intestinal flora of obese patients, which in turn may affect the cognitive function of obese patients.
Site fidelity of migratory shorebirds facing habitat deterioration: insights from satellite tracking and mark-resighting
Authors: Chan Ying-Chi , Chan David Tsz Chung , Tibbitts T. Lee , Hassell Chris J. , Piersma Theunis 
Published: December 2023

Abstract
Background
Site fidelity, the tendency to return to a previously visited site, is commonly observed in migratory birds. This behaviour would be advantageous if birds returning to the same site, benefit from their previous knowledge about local resources. However, when habitat quality declines at a site over time, birds with lower site fidelity might benefit from a tendency to move to sites with better habitats. As a first step towards understanding the influence of site fidelity on how animals cope with habitat deterioration, here we describe site fidelity variation in two species of sympatric migratory shorebirds (Bar-tailed Godwits Limosa lapponica and Great Knots Calidris tenuirostris). Both species are being impacted by the rapid loss and deterioration of intertidal habitats in the Yellow Sea where they fuel up during their annual long-distance migrations.

Methods
Using satellite tracking and mark-resighting data, we measured site fidelity in the non-breeding (austral summer) and migration periods, during which both species live and co-occur in Northwest Australia and the Yellow Sea, respectively.

Results
Site fidelity was generally high in both species, with the majority of individuals using only one site during the non-breeding season and revisiting the same sites during migration. Nevertheless, Great Knots did exhibit lower site fidelity than Bar-tailed Godwits in both Northwest Australia and the Yellow Sea across data types.

Conclusions
Great Knots encountered substantial habitat deterioration just before and during our study period but show the same rate of decline in population size and individual survival as the less habitat-impacted Bar-tailed Godwits. This suggests that the lower site fidelity of Great Knots might have helped them to cope with the habitat changes. Future studies on movement patterns and their consequences under different environmental conditions by individuals with different degrees of site fidelity could help broaden our understanding of how species might react to, and recover from, local habitat deterioration.
The identification, characterization, and management of Rotylenchulus reniformis on Cucumis melo in China
Authors: Shi Qianqian , Cai Xinyue , Zhang Ziqi , Song Wenwen , Liang Chen , Duan Fangmeng , Zhao Honghai 
Published: December 2023

AbstractThe reniform nematode, Rotylenchulus reniformis, is a sedentary root parasite that poses a significant threat to agricultural production in tropical and subtropical regions worldwide. In 2021–2022, a population of R. reniformis was identified in a melon greenhouse in Jimo District, Qingdao, China. To characterize this population, we employed morphological, morphometric, and molecular methods, which confirmed the identity of the nematodes as R. reniformis. Our investigation revealed that R. reniformis successfully infected the roots of melon plants and laid eggs, which could have led to significant crop damage. This report represents the first documented example of R. reniformis infecting melon plants in China. We evaluated several control strategies to combat this nematode, and our results indicated that soil solarization and the use of fosthiazate or chitooligosaccharide copper in combination with soil solarization were effective measures for managing R. reniformis in a greenhouse setting. In addition, combining soil solarization with chitooligosaccharide copper promoted melon plant growth and increased the relative abundance of microorganisms with biocontrol potential.