bluuebunny/crossref_metadata_2025_split huggingface dataset:
A time window for rescuing dying retinal ganglion cells
Authors: You Wenting , Knoops Kèvin , Boesten Iris , Berendschot Tos T. J. M. , van Zandvoort Marc A. M. J. , Benedikter Birke J. , Webers Carroll A. B. , Reutelingsperger Chris P. M. , Gorgels Theo G. M. F. 
Published: January 2024

Abstract
Background
Retinal ganglion cell (RGC) degeneration and death cause vision loss in patients with glaucoma. Regulated cell death, once initiated, is generally considered to be an irreversible process. Recently, we showed that, by timely removing the cell death stimulus, stressed neuronal PC12 cells can recover from phosphatidylserine (PS) exposure, nuclear shrinkage, DNA damage, mitochondrial fragmentation, mitochondrial membrane potential loss, and retraction of neurites, all hallmarks of an activated cell death program. Whether the cell death process can be reversed in neurons of the central nervous system, like RGCs, is still unknown. Here, we studied reversibility of the activated cell death program in primary rat RGCs (prRGCs).

Methods
prRGCs were exposed to ethanol (5%, vol/vol) to induce cell death. At different stages of the cell death process, ethanol was removed by washing and injured prRGCs were further cultured in fresh medium to see whether they recovered. The dynamics of single cells were monitored by high-resolution live-cell spinning disk microscopy. PS exposure, mitochondrial structure, membrane potential, and intracellular Ca2+ were revealed by annexin A5-FITC, Mito-tracker, TMRM, and Fluo 8-AM staining, respectively. The distribution of cytochrome c was investigated by immunofluorescence. The ultrastructure of mitochondria was studied by electron microscopy.

Results
Analysis of temporal relationships between mitochondrial changes and PS exposure showed that fragmentation of the mitochondrial network and loss of mitochondrial membrane potential occurred before PS exposure. Mitochondrial changes proceeded caspase-independently, while PS exposure was caspase dependent. Interestingly, prRGCs recovered quickly from these mitochondrial changes but not from PS exposure at the plasma membrane. Correlative light and electron microscopy showed that stress-induced decrease in mitochondrial area, length and cristae number was reversible. Intracellular Ca2+ was elevated during this stage of reversible mitochondrial injury, but there was no sign of mitochondrial cytochrome c release.

Conclusions
Our study demonstrates that RGCs with impaired mitochondrial structure and function can fully recover if there is no mitochondrial cytochrome c release yet, and no PS is exposed at the plasma membrane. This finding indicates that there is a time window for rescuing dying or injured RGCs, by simply removing the cell death stimulus.
Application of machine learning-based multi-sequence MRI radiomics in diagnosing anterior cruciate ligament tears
Authors: Cheng Qi , Lin Haoran , Zhao Jie , Lu Xiao , Wang Qiang 
Published: January 2024

Abstract
Objective
To compare the diagnostic power among various machine learning algorithms utilizing multi-sequence magnetic resonance imaging (MRI) radiomics in detecting anterior cruciate ligament (ACL) tears. Additionally, this research aimed to create and validate the optimal diagnostic model.

Methods
In this retrospective analysis, 526 patients were included, comprising 178 individuals with ACL tears and 348 with a normal ACL. Radiomics features were derived from multi-sequence MRI scans, encompassing T1-weighted imaging and proton density (PD)-weighted imaging. The process of selecting the most reliable radiomics features involved using interclass correlation coefficient (ICC) testing, t tests, and the least absolute shrinkage and selection operator (LASSO) technique. After the feature selection process, five machine learning classifiers were created. These classifiers comprised logistic regression (LR), support vector machine (SVM), K-nearest neighbors (KNN), light gradient boosting machine (LightGBM), and multilayer perceptron (MLP). A thorough performance evaluation was carried out, utilizing diverse metrics like the area under the receiver operating characteristic curve (ROC), specificity, accuracy, sensitivity positive predictive value, and negative predictive value. The classifier exhibiting the best performance was chosen. Subsequently, three models were developed: the PD model, the T1 model, and the combined model, all based on the optimal classifier. The diagnostic performance of these models was assessed by employing AUC values, calibration curves, and decision curve analysis.

Results
Out of 2032 features, 48 features were selected. The SVM-based multi-sequence radiomics outperformed all others, achieving AUC values of 0.973 and 0.927, sensitivities of 0.933 and 0.857, and specificities of 0.930 and 0.829, in the training and validation cohorts, respectively.

Conclusion
The multi-sequence MRI radiomics model, which is based on machine learning, exhibits exceptional performance in diagnosing ACL tears. It provides valuable insights crucial for the diagnosis and treatment of knee joint injuries, serving as an accurate and objective supplementary diagnostic tool for clinical practitioners.
Metabolic reprogramming in the tumor microenvironment of liver cancer
Authors: Lin Jian , Rao Dongning , Zhang Mao , Gao Qiang 
Published: January 2024

AbstractThe liver is essential for metabolic homeostasis. The onset of liver cancer is often accompanied by dysregulated liver function, leading to metabolic rearrangements. Overwhelming evidence has illustrated that dysregulated cellular metabolism can, in turn, promote anabolic growth and tumor propagation in a hostile microenvironment. In addition to supporting continuous tumor growth and survival, disrupted metabolic process also creates obstacles for the anticancer immune response and restrains durable clinical remission following immunotherapy. In this review, we elucidate the metabolic communication between liver cancer cells and their surrounding immune cells and discuss how metabolic reprogramming of liver cancer impacts the immune microenvironment and the efficacy of anticancer immunotherapy. We also describe the crucial role of the gut–liver axis in remodeling the metabolic crosstalk of immune surveillance and escape, highlighting novel therapeutic opportunities.
Links between the three-dimensional movements of whale sharks (Rhincodon typus) and the bio-physical environment off a coral reef
Authors: D’Antonio Ben , Ferreira Luciana C. , Meekan Mark , Thomson Paul G. , Lieber Lilian , Virtue Patti , Power Chloe , Pattiaratchi Charitha B. , Brierley Andrew S. , Sequeira Ana M. M. , Thums Michele 
Published: January 2024

Abstract
Background
Measuring coastal-pelagic prey fields at scales relevant to the movements of marine predators is challenging due to the dynamic and ephemeral nature of these environments. Whale sharks (Rhincodon typus) are thought to aggregate in nearshore tropical waters due to seasonally enhanced foraging opportunities. This implies that the three-dimensional movements of these animals may be associated with bio-physical properties that enhance prey availability. To date, few studies have tested this hypothesis.

Methods
Here, we conducted ship-based acoustic surveys, net tows and water column profiling (salinity, temperature, chlorophyll fluorescence) to determine the volumetric density, distribution and community composition of mesozooplankton (predominantly euphausiids and copepods) and oceanographic properties of the water column in the vicinity of whale sharks that were tracked simultaneously using satellite-linked tags at Ningaloo Reef, Western Australia. Generalised linear mixed effect models were used to explore relationships between the 3-dimensional movement behaviours of tracked sharks and surrounding prey fields at a spatial scale of ~ 1 km.

Results
We identified prey density as a significant driver of horizontal space use, with sharks occupying areas along the reef edge where densities were highest. These areas were characterised by complex bathymetry such as reef gutters and pinnacles. Temperature and salinity profiles revealed a well-mixed water column above the height of the bathymetry (top 40 m of the water column). Regions of stronger stratification were associated with reef gutters and pinnacles that concentrated prey near the seabed, and entrained productivity at local scales (~ 1 km). We found no quantitative relationship between the depth use of sharks and vertical distributions of horizontally averaged prey density. Whale sharks repeatedly dove to depths where spatially averaged prey concentration was highest but did not extend the time spent at these depth layers.

Conclusions
Our work reveals previously unrecognized complexity in interactions between whale sharks and their zooplankton prey.
Quasi-statically actuated MEMS scanner with concentric vertical comb electrodes
Authors: Chae Daehwan , Jeong Do-hyeon , Yun Seong-jong , Jo Kyoung-woo , Lee Jong-Hyun 
Published: January 2024

AbstractA quasi-static (QS) MEMS mirror scanner with concentric vertical combs (CVC) is presented. The increase rate of overlapped area of the CVC, tends to show larger values and more uniform than that of conventional vertical combs, resulting in improved linearity and scanning angle, respectively. In this paper, the performance of the QS scanner with CVC, whose equivalent mirror diameter is 3.9 mm, was theoretically analyzed and compared with the fabricated one and also other types of vertical combs such as staggered vertical combs (SVC) and angular vertical combs (AVC). The linearity was less than 0.1%, and the average value of the experimental OSA (optical scanning angle) was up to 13.5 degrees, which is only 1/3 and 39% larger than other scanners, respectively, under the condition that the configuration and dimension of each MEMS scanner is similar each other.
Feasibility study of a SiPM-fiber detector for non-invasive measurement of arterial input function for preclinical and clinical positron emission tomography
Authors: de Scals Sara , Fraile Luis Mario , Udías José Manuel , Martínez Cortés Laura , Oteo Marta , Morcillo Miguel Ángel , Carreras-Delgado José Luis , Cabrera-Martín María Nieves , España Samuel 
Published: January 2024

AbstractPharmacokinetic positron emission tomography (PET) studies rely on the measurement of the arterial input function (AIF), which represents the time-activity curve of the radiotracer concentration in the blood plasma. Traditionally, obtaining the AIF requires invasive procedures, such as arterial catheterization, which can be challenging, time-consuming, and associated with potential risks. Therefore, the development of non-invasive techniques for AIF measurement is highly desirable. This study presents a detector for the non-invasive measurement of the AIF in PET studies. The detector is based on the combination of scintillation fibers and silicon photomultipliers (SiPMs) which leads to a very compact and rugged device. The feasibility of the detector was assessed through Monte Carlo simulations conducted on mouse tail and human wrist anatomies studying relevant parameters such as energy spectrum, detector efficiency and minimum detectable activity (MDA). The simulations involved the use of 18F and 68Ga isotopes, which exhibit significantly different positron ranges. In addition, several prototypes were built in order to study the different components of the detector including the scintillation fiber, the coating of the fiber, the SiPMs, and the operating configuration. Finally, the simulations were compared with experimental measurements conducted using a tube filled with both 18F and 68Ga to validate the obtained results. The MDA achieved for both anatomies (approximately 1000 kBq/mL for mice and 1 kBq/mL for humans) falls below the peak radiotracer concentrations typically found in PET studies, affirming the feasibility of conducting non-invasive AIF measurements with the fiber detector. The sensitivity for measurements with a tube filled with 18F (68Ga) was 1.2 (2.07) cps/(kBq/mL), while for simulations, it was 2.81 (6.23) cps/(kBq/mL). Further studies are needed to validate these results in pharmacokinetic PET studies.
Searching for Monse
Authors: Jiménez Mónica A. 
Published: January 2024

AbstractThis article focuses on the political life and imprisonment of the author’s great-aunt, Monserrate del Valle del Toro, a Puerto Rican nationalist and onetime political prisoner. Monserrate was arrested in Arecibo, Puerto Rico, on October 30, 1950, for participating in an attempt to overthrow the US government. In telling Monserrate’s story, the article attempts to upend certain established narratives of the history of Puerto Rican nationalism, of who fought in the struggle for independence and how they fought. That fight took place in the political and legal arena and in the streets of towns all over the archipelago, but it also took place within the walls of the Arecibo District Jail, where a group of nationalist women, including Monserrate, sheltered, cared for, and fed each other.
Affective Habit Ecologies of Writing and Trauma-Informed Composition Pedagogy
Authors: Spitzer-Hanks D. T. 
Published: January 2024

AbstractWriting is both affective and ecological. Consequently, effective writing instructors need a deep understanding of writing's affective and ecological aspects, making composition one of the most complex and challenging areas of pedagogical endeavor. This claim is especially true in institutions whose product-oriented epistemologies make writing potentially traumatizing for many student writers. To assist writing teachers in meeting student writers’ needs, this article draws on a diverse body of research to explain writing affect, its role in ecological processes of composition within early collegiate humanities curricula, the relation of writing affect to writers’ identities, and the impact collegiate corporatization may have on composition instruction. Subsequently, this article describes approaches for making writing pedagogy more process oriented, trauma informed, and equity centered.
Teaching Palestine
Authors: Schueller Malini Johar 
Published: January 2024

Abstract
This article explores theories and methodologies for an activist teaching and reading of Palestinian literature, including Susan Abulhawa's novel Mornings in Jenin and Remi Kanazi's poetry. Based on student responses — empathy with individual Palestinian characters but not resistance to Israeli settler colonialism — the author suggests that empathetic identification, often perceived as a means of comprehending the other, instead blocks political and historical understandings. Building on Saidiya Hartman's and Lorenzo Veracini's arguments, the author posits the need for seeing the other through a Levinasian radical alterity (which he denied Palestinians), not through similarity. Moments when texts disturbed readerly identification were moments of activist potential.
Rethinking the Implications of NATO’s Afghanistan Operation and Its Partnership for Peace in Central Asia: Is It the End of NATO’s Presence in Central Asia?
Authors: BAĞBAŞLIOĞLU Arif 
Published: January 2024

NATO’s partnership policy, including its Partnership for Peace (PfP) program, which aims to develop cooperation and dialogue with non-NATO countries, represents the first steps for an
essentially Euro-Atlantic alliance to establish an institutional relationship with Central Asian states. The war on terror discourse after the September 11 attacks, the US intervention in Afghanistan
in 2001, and NATO’s takeover of the ISAF mission in 2003 made it easier for NATO to establish institutional relations with Central Asian states. This study first discusses the effects of the end of the
Afghanistan operation on NATO’s approach towards Central Asia in light of current developments, such as the Russia-Ukraine war and NATO’s 2022 Strategic Concept. It then explains why the
PfP program did not produce the desired results in developing relations with Central Asian states.
Sex differences in the applicability of Western cardiovascular disease risk prediction equations in the Asian population
Authors: Lim Hee-Sook , Han Hyein , Won Sungho , Ji Sungin , Park Yoonhyung , Lee Hae-Young 
Published: January 2024

Aims
Cardiovascular diseases (CVDs) are the most common cause of death, but they can be effectively managed through appropriate prevention and treatment. An important aspect in preventing CVDs is assessing each individual’s comprehensive risk profile, for which various risk engines have been developed. The important keys to CVD risk engines are high reliability and accuracy, which show differences in predictability depending on disease status or race. Framingham risk score (FRS) and the atherosclerotic cardiovascular disease risk equations (ASCVD) were applied to the Korean population to assess their suitability.

Methods
A retrospective cohort study was conducted using National Health Insurance Corporation sample cohort from 2003 to 2015. The enrolled participants over 30 years of age and without CVD followed-up for 10 years. We compared the prediction performance of FRS and ASCVD and calculated the relative importance of each covariate.

Results
The AUCs of FRS (men: 0.750; women: 0.748) were higher than those of ASCVD (men: 0.718; women: 0.727) for both sexes (Delong test P <0.01). Goodness of fits (GOF) were poor for all models (Chi-square P < 0.001), especially, underestimation of the risk was pronounced in women. When the men’s coefficients were applied to women’s data, AUC (0.748; Delong test P<0.01) and the GOF (chi-square P = 0.746) were notably improved in FRS. Hypertension was found to be the most influential variable for CVD, and this is one of the reasons why FRS, having the highest relative weight to blood pressure, showed better performance.

Conclusion
When applying existing tools to Korean women, there was a noticeable underestimation. To accurately predict the risk of CVD, it was more appropriate to use FRS with men’s coefficient in women. Moreover, hypertension was found to be a main risk factor for CVD.
Supporting regional pandemic management by enabling self-service reporting—A case report
Authors: Gebler Richard , Lehmann Martin , Löwe Maik , Gruhl Mirko , Wolfien Markus , Goldammer Miriam , Bathelt Franziska , Karschau Jens , Hasselberg Andreas , Bierbaum Veronika , Lange Toni , Polotzek Katja , Held Hanns-Christoph , Albrecht Michael , Schmitt Jochen , Sedlmayr Martin 
Published: January 2024

BackgroundThe COVID-19 pandemic revealed a need for better collaboration among research, care, and management in Germany as well as globally. Initially, there was a high demand for broad data collection across Germany, but as the pandemic evolved, localized data became increasingly necessary. Customized dashboards and tools were rapidly developed to provide timely and accurate information. In Saxony, the DISPENSE project was created to predict short-term hospital bed capacity demands, and while it was successful, continuous adjustments and the initial monolithic system architecture of the application made it difficult to customize and scale.MethodsTo analyze the current state of the DISPENSE tool, we conducted an in-depth analysis of the data processing steps and identified data flows underlying users’ metrics and dashboards. We also conducted a workshop to understand the different views and constraints of specific user groups, and brought together and clustered the information according to content-related service areas to determine functionality-related service groups. Based on this analysis, we developed a concept for the system architecture, modularized the main services by assigning specialized applications and integrated them into the existing system, allowing for self-service reporting and evaluation of the expert groups’ needs.ResultsWe analyzed the applications’ dataflow and identified specific user groups. The functionalities of the monolithic application were divided into specific service groups for data processing, data storage, predictions, content visualization, and user management. After composition and implementation, we evaluated the new system architecture against the initial requirements by enabling self-service reporting to the users.DiscussionBy modularizing the monolithic application and creating a more flexible system, the challenges of rapidly changing requirements, growing need for information, and high administrative efforts were addressed.ConclusionWe demonstrated an improved adaptation towards the needs of various user groups, increased efficiency, and reduced burden on administrators, while also enabling self-service functionalities and specialization of single applications on individual service groups.
Causal relationship between diet and knee osteoarthritis: A Mendelian randomization analysis
Authors: Lv Xiaofeng , Liang Fangqi , Liu Shanshan , Deng Xinmin , Lai Rui , Du Jihang , Luo Jian 
Published: January 2024

Background
Knee osteoarthritis (KOA) is a common disabling joint disease that affects millions of people worldwide. Diet may play a role in the etiology and progression of KOA, but evidence for a causal relationship is limited. We aimed to investigate the causal impact of dietary intake on KOA risk using Mendelian randomization (MR).

Methods
We used summary-level data from genome-wide association studies (GWAS) including dietary intake (n = 335, 394–462, 342), and KOA (n = 403, 124). We selected 6–77 genetic variants as instrumental variables for 18 dietary factors, including processed meat, poultry, beef, oily fish, non-oily fish, pork, lamb, frequency of alcohol intake, alcoholic beverages, tea, coffee, dried fruit, cereals, cheese, bread, cooked vegetables, salad/raw vegetables, and fresh fruit. We performed univariate and multivariate MR analyses to estimate the causal effect of each dietary factor on KOA risk. We also performed some sensitivity analyses to assess the validity of the MR hypothesis.

Results
We found that higher coffee intake was associated with increased KOA risk, whereas higher intake of dried fruits, grains, cheese, and oily fish was associated with reduced KOA risk. After multivariate adjustment, we found that coffee and oily fish intake may affect KOA through obesity, body mass index (BMI), diabetes, hypertension, and prolonged standing. Sensitivity analyses did not reveal any evidence of pleiotropy.

Conclusions
Our study provides new causal evidence that dietary intake may influence KOA risk. Specifically, we suggest that increased intake of dried fruits, grains, cheese, and oily fish and decreased coffee intake may be beneficial in preventing and mitigating KOA. further studies are needed to elucidate the underlying mechanisms and to confirm our findings in different populations.