bluuebunny/crossref_metadata_2025_split huggingface dataset:
Using meta-analysis and machine learning to investigate the transcriptional response of immune cells to Leishmania infection
Authors: Rezaei Zahra , Tahmasebi Ahmad , Pourabbas Bahman 
Published: January 2024

Background
Leishmaniasis is a parasitic disease caused by the Leishmania protozoan affecting millions of people worldwide, especially in tropical and subtropical regions. The immune response involves the activation of various cells to eliminate the infection. Understanding the complex interplay between Leishmania and the host immune system is crucial for developing effective treatments against this disease.

Methods
This study collected extensive transcriptomic data from macrophages, dendritic, and NK cells exposed to Leishmania spp. Our objective was to determine the Leishmania-responsive genes in immune system cells by applying meta-analysis and feature selection algorithms, followed by co-expression analysis.

Results
As a result of meta-analysis, we discovered 703 differentially expressed genes (DEGs), primarily associated with the immune system and cellular metabolic processes. In addition, we have substantiated the significance of transcription factor families, such as bZIP and C2H2 ZF, in response to Leishmania infection. Furthermore, the feature selection techniques revealed the potential of two genes, namely G0S2 and CXCL8, as biomarkers and therapeutic targets for Leishmania infection. Lastly, our co-expression analysis has unveiled seven hub genes, including PFKFB3, DIAPH1, BSG, BIRC3, GOT2, EIF3H, and ATF3, chiefly related to signaling pathways.

Conclusions
These findings provide valuable insights into the molecular mechanisms underlying the response of immune system cells to Leishmania infection and offer novel potential targets for the therapeutic goals.
Optimizing laser-based micro-cutting for PMMA microfluidic device fabrication: thermal analysis and parameter optimization
Authors: Bagum Mst. Nasima , Habib Md. Ahsan , Rashed Choudhury Abul Anam , Kibria Md. Mehedi Hasan , Nahar Syeda Kumrun 
Published: January 2024

Abstract
Laser processes have gained popularity in microfluidic device fabrication. This study aims to determine the optimal parameters for laser-based micro-cutting to achieve the desired width, depth, profile, and material removal, considering the thermal properties of PMMA. A CNC CO2 laser was used, and 29 trials tested various speed and power combinations. Two theoretical models based on trial results focused on depth and width. COMSOL Multiphysics FEA software estimated surface temperature. Theoretical depth estimation matched experimental data more accurately when the P/S ratio was below 0.15 and the scanning speed was set at 500 mm/s or 750 mm/s. At 500 mm/s, width estimation was most accurate, up to 30 W. At 750 mm/s, experimental width exceeded predictions. Material removal increased proportionally with increasing P/S ratio, but beyond a threshold of 0.15, material removal remained nearly constant despite rising heat input. Laser-cut track shape varied, resembling a ‘U’ at lower and a ‘V’ at higher ratios. The groove shape transitioned from ‘U’ to ‘V’ when the temperature surpassed 1200 K. A V-shaped groove required a temperature exceeding 1500 K. Optimization confirmed a microchannel depth of 0.197 mm, width of 0.256 mm, and ‘U–V’ channel shape achievable at 30 W and 200 mm/s scanning speed, with a surface temperature of 1325 K.
Enhancing athletes’ self-compassion and psychological well-being through imagery
Authors: Carson Sackett Sarah , Alicea Sheila , Winter Angela 
Published: January 2024

Abstract
This review examines the extant literature advocating for enhanced self-compassion as an accessible means to foster psychological well-being (e.g., reduced self-criticism, rumination, and anxiety symptom; enhanced hope, emotion regulation, self-acceptance, self-efficacy). The case for athletes as a special population who can benefit from strengthening this asset is made; Compassion-Focused Imagery (CFI) is introduced as an effective tool for developing self-compassion; and a case scenario and sample CFI script are presented. Gaps in the current understanding of and empirical investigations of CFI use in athletes are identified, along with unique challenges the sport context provides for self-compassion-focused interventions.
Ultra-broadband and wide-angle nonreciprocal thermal emitter based on Weyl semimetal metamaterials
Authors: Shi Kezhang , Sun Yuwei , Hu Run , He Sailing 
Published: January 2024

Abstract
Nonreciprocal thermal radiation can violate Kirchhoff’s law and exhibit different emissivity at symmetric polar angles relative to the normal direction. Realizing a mid-infrared broadband nonreciprocal thermal emitter with a wide emission angle range is a fundamental yet challenging task, particularly without the need for an external magnetic field. Here, we propose a nonreciprocal thermal emitter operating in the mid-infrared that achieves a significantly nonreciprocal thermal radiation in a wavelength range from 12 μm to 20 μm, spanning a wide angular range from 16° to 88°. This is achieved by utilizing a multilayered Weyl semimetal (WSM)/dielectric structure, which takes the advantage of the strong nonreciprocity of WSMs with different Fermi levels and epsilon-near-zero-induced Brewster modes. The results provide a wider angular range in the broad mid-infrared band compared to previous attempts. The robustness of the nonreciprocal radiation is confirmed through wavelength-averaged emissivity across the azimuth angle φ range from 0° to 360°. Some possible materials and nanostructures as dielectric layers are discussed, showcasing the flexibility and reliability of the design. This work holds promising potential applications such as enhanced radiative cooling, thermal emitters for medical sensing and infrared heating, energy conversion, etc.
Spatio-spectral control of coherent nanophotonics
Authors: Lee June Sang , Farmakidis Nikolaos , Aggarwal Samarth , Dong Bowei , Zhou Wen , Pernice Wolfram H. P. , Bhaskaran Harish 
Published: January 2024

Abstract
Fast modulation of optical signals that carry multidimensional information in the form of wavelength, phase or polarization has fueled an explosion of interest in integrated photonics. This interest however masks a significant challenge which is that independent modulation of multi-wavelength carrier signals in a single waveguide is not trivial. Such challenge is attributed to the longitudinal direction of guided-mode propagation, limiting the spatial separation and modulation of electric-field. Here, we overcome this using a single photonic element that utilizes active coherent (near) perfect absorption. We make use of standing wave patterns to exploit the spatial-degrees-of-freedom of in-plane modes and individually address elements according to their mode number. By combining the concept of coherent absorption in spatio-spectral domain with active phase-change nanoantennas, we engineer and test an integrated, reconfigurable and multi-spectral modulator operating within a single element. Our approach demonstrates for the first time, a non-volatile, wavelength-addressable element, providing a pathway for exploring the tunable capabilities in both spatial and spectral domains of coherent nanophotonics.
Broadband giant nonlinear response using electrically tunable polaritonic metasurfaces
Authors: Yu Jaeyeon , Park Seongjin , Hwang Inyong , Boehm Gerhard , Belkin Mikhail A. , Lee Jongwon 
Published: January 2024

Abstract
Intersubband transitions in semiconductor heterostructures offer a way to achieve large and designable nonlinearities with dynamic modulation of intersubband energies through the Stark effect. One promising approach for incorporating these nonlinearities into free space optics is a nonlinear polaritonic metasurface, which derives resonant coupling between intersubband nonlinearities and optical modes in nanocavities. Recent work has shown efficient frequency mixing at low pumping intensities, with the ability to electrically tune the phase, amplitude, and spectral peak of it. However, the spectral tunability of intersubband nonlinearities is constrained by the static spectral response of nanocavities. To overcome this limitation, we present nonlinear polaritonic metasurfaces for a broadband giant nonlinear response. This is achieved by combining a Stark tunable nonlinear response from a quantum-engineered semi-conductor heterostructure with arrays of three nanocavities with different resonant wavelengths. We experimentally demonstrate broadband second harmonic generation (SHG) and a shift in the peak SHG efficiency within the range of 8.9–10.6 μm by applying bias voltage. This work will provide a promising route for achieving broadband and electrically tunable nonlinearities in metasurfaces.
Removal of acid dye from wastewater by cloud point extraction and regeneration of surfactant by pH regulation
Authors: Ghouas Halima , Benderrag Abdelkader , Haddou Boumedienne , Gourdon Cristophe 
Published: January 2024

Abstract
This work concerns the coacervate extraction of industrial dye, namely Acid Green 9 (AG-9) from aqueous solution by nonionic surfactant Lutensol AO7 and TX-114 (readily biodegradable). Binary water/surfactant and pseudo-binary phase diagrams were plotted. The extraction results as a function of wt% of the surfactant and temperature are expressed by: percentage of solute extracted, E%, residual concentrations of solute and surfactant in the dilute phase (X

s,w
and X

t,w
respectively) and volume fraction of coacervate at equilibrium (Фc). For each parameter, whose values are determined by a design of experiments, these results are subjected to empirical smoothing in three dimensionsusing response surface methodology (RSM). The aim of this study is to find out the best compromise between E % and Фc. Under optimal conditions, the extraction extent of AG-9 reaches 98 % and 96 % using TX-114 and Lutensol AO7, respectively. The effect of Na2SO4 and CTAB addition is also studied. Finally, the possibility of recycling the surfactant is proved.
Association of sensitivity to thyroid hormones with all-cause mortality in euthyroid US adults: a nationwide cohort study
Authors: Yu Genfeng , Liu Siyang , Song Cheng , Ma Qintao , Chen Xingying , Jiang Yuqi , Duan Hualin , He Yajun , Wang Dongmei , Wan Heng , Shen Jie 
Published: January 2024

Background
This study aimed to examine the associations of thyroid hormone sensitivity indices, including free triiodothyronine-to-free thyroxine (FT3/FT4) ratio, thyroid feedback quantile-based index by FT4 (TFQIFT4), thyroid-stimulating hormone index (TSHI), and thyrotrophic thyroxine resistance index (TT4RI) with all-cause mortality in euthyroid adults.

Methods
The study included 6243 euthyroid adults from the National Health and Nutrition Examination Survey (NHANES) 2007–2012. FT3/FT4 ratio, TFQIFT4, TSHI, and TT4RI were calculated. The multivariable Cox proportional hazard regression, restricted cubic spline (RCS), and subgroup analysis were conducted.

Results
Individuals in fourth quartile (Q4) had lower all-cause mortality than those in first quartile (Q1) of FT3/FT4 ratio (hazard ratio (HR): 0.70, 95% CI: 0.51, 0.94). Regarding TFQIFT4, individuals in Q4 of TFQIFT4 had a 43% higher all-cause mortality than those in Q1 (HR: 1.43, 95% CI: 1.05, 1.96) (P < 0.05, all). Compared with participants in Q1, no associations of TSHI and TT4RI with mortality were found. TFQIFT4 was linearly and positively associated with mortality. However, the FT3/FT4 ratio showed a U-shaped association with mortality.

Conclusions
Increased risk for all-cause mortality was positively associated with TFQIFT4, suggesting that increased risk for all-cause mortality was associated with decreased central sensitivity to thyroid hormones. Furthermore, the FT3/FT4 ratio showed a U-shaped association with mortality, with an inflection point at 0.5. However, more cohort studies are needed to validate the conclusions.
Influence of thermal strain on concrete spalling
Authors: Klimek André , Stelzner Ludwig , Hothan Sascha , Zehfuß Jochen 
Published: January 2024

AbstractUnderstanding the susceptibility to spalling of concrete members in case of fire is important to evaluate the residual load-bearing capacity. The investigations of the spalling phenomenon of a concrete mixture using real scale members are necessary but expensive to carry out. Reducing the specimen size leads to an increase of boundary effects that can result in a reduced spalling or absence of spalling. In this study, fire tests were carried out on unrestrained, single-sided exposed, cuboid shaped specimens (0.6 m $$\times$$
×
0.6 m $$\times$$
×
0.29 m) as well as unrestrained and steel ring restrained cylindrical specimens (Ø = 0.47 m, h = 0.29 m), which induce different boundary conditions. These fire tests were carried out on two ordinary concrete mixtures. The two mixtures differ only in the type of aggregates (quartz gravel and basalt grit) and were used to investigate the influence of the thermal expansion of the aggregate on the spalling behaviour of the concrete. The results show a significant increase of the spalling depth due to the restrained thermal expansion achieved by the applied steel rings. Additionally, the type of aggregate has a direct influence on the spalling behaviour of a concrete mixture. The reduction of the boundary effects by the steel rings recreate the test conditions in the centre of a large concrete member. Thus, this type of specimen is suitable to determine the susceptibility to spalling of a material (screening-tests) as preliminary investigations to full scale fire tests.
Long-term efficacy and safety of cardiac genome editing for catecholaminergic polymorphic ventricular tachycardia
Authors: Moore Oliver M. , Aguilar-Sanchez Yuriana , Lahiri Satadru K. , Hulsurkar Mohit M. , Navarro-Garcia J. Alberto , Word Tarah A. , Keefe Joshua A. , Barazi Dean , Munivez Elda M. , Moore Charles T. , Parthasarathy Vaidya , Davidson Jaysón , Lagor William R. , Park So Hyun , Bao Gang , Miyake Christina Y. , Wehrens Xander H. T. 
Published: January 2024

Introduction: Heterozygous autosomal-dominant single nucleotide variants in RYR2 account for 60% of cases of catecholaminergic polymorphic ventricular tachycardia (CPVT), an inherited arrhythmia disorder associated with high mortality rates. CRISPR/Cas9-mediated genome editing is a promising therapeutic approach that can permanently cure the disease by removing the mutant RYR2 allele. However, the safety and long-term efficacy of this strategy have not been established in a relevant disease model.
Aim: The purpose of this study was to assess whether adeno-associated virus type-9 (AAV9)-mediated somatic genome editing could prevent ventricular arrhythmias by removal of the mutant allele in mice that are heterozygous for Ryr2 variant p.Arg176Gln (R176Q/+).
Methods and Results: Guide RNA and SaCas9 were delivered using AAV9 vectors injected subcutaneously in 10-day -old mice. At 6 weeks after injection, R176Q/+ mice had a 100% reduction in ventricular arrhythmias compared to controls. When aged to 12 months, injected R176Q/+ mice maintained a 100% reduction in arrhythmia induction. Deep RNA sequencing revealed the formation of insertions/deletions at the target site with minimal off-target editing on the wild-type allele. Consequently, CRISPR/SaCas9 editing resulted in a 45% reduction of total Ryr2 mRNA and a 38% reduction in RyR2 protein. Genome editing was well tolerated based on serial echocardiography, revealing unaltered cardiac function and structure up to 12 months after AAV9 injection.
Conclusion: Taken together, AAV9-mediated CRISPR/Cas9 genome editing could efficiently disrupt the mutant Ryr2 allele, preventing lethal arrhythmias while preserving normal cardiac function in the R176Q/+ mouse model of CPVT.
Mapping and Analyzing High School Physics Misconceptions: Novel Insights from a 20-Year Bibliometric Study (2002-2022)
Authors: Damarsha Adrian Bagas , Safitri Afaurina Indriana , Nisa' Khoirun , Rizki Iqbal Ainur , Suprapto Nadi , Harnawan Ade Agung 
Published: January 2024

The primary objective of this study is to comprehensively explore, identify, and visually represent the research landscape related to physics misconceptions over the past two decades. This encompasses research trends, authorship patterns, the most prolific institutions, countries of origin, profiles of top-cited articles, and key themes through favorable keywords. It can be known which physics materials are often studied in terms of misconceptions and efforts to identify them. To fulfill this objective, a meticulous bibliometric analysis was conducted on a dataset comprising 61 meticulously selected documents, screened using specific search queries. Data were extracted from the Scopus database and analyzed using VOSviewer software. The analysis results show that the research trend of physics misconceptions has increased in recent years. Information on authors, institutions, subject areas, countries, and most influential documents was also analyzed in the study, along with the number of citations and article production. Of paramount significance (17 clusters and 297 items) is the revelation that research in the realm of physics misconceptions gravitates towards understanding the role of technology-mediated learning, brain processes, individual student characteristics, and assessment techniques can all contribute to a better understanding of misconceptions and how they can be effectively addressed in educational settings. In essence, the implications of this research extend beyond the realm of physics education, touching on teaching methodologies, curriculum design, educational policies, and the broader advancement of scientific literacy in Indonesia.
A Statistical Model for Identifying Collusive Bidding Based on Historical Quotations
Authors: Li Jieni , Xie Fei , Guo Hongchao 
Published: January 2024

Open bidding is widely used in Sinopec&#039;s material procurement due to its advantages of openness, transparency, and cost savings. However, there have been many complaints about collusive bidding in recent years. Collusive bidding will pose significant challenges to fair competition and increase project costs for material procurement. Therefore, there is an urgent need for an analysis model to identify and prevent the collusive bidding. In this paper, we propose a statistical model for identifying collusive bidding using the coefficient of variation cv, the ratio of high to low average quotation rP and the deviation rate of quotation δ as indicators, based on the statistics of the historical quotations for material A. Through a case study of the framework agreement bidding for material B, we identified the collusion behavior of bidders effectively, thereby verifying the applicability of this statistical model.
Interpretable Lost Circulation Analysis: Labeled, Identified, and Analyzed Lost Circulation in Drilling Operations
Authors: Feng Yongcun , Yang Heng , Li Xiaorong , Zhang Shuai , Hu Han , Wang Jinshu 
Published: January 2024

Summary
Lost circulation (LC) is a serious problem in drilling operations, as it increases nonproductive time and costs. It can occur due to various complex factors, such as geological parameters, drilling fluid properties, and operational drilling parameters, either individually or in combination. Therefore, studying the types, influencing factors, and causes of LC is crucial for effectively improving prevention and plugging techniques. Currently, the expert diagnosis of LC types relies heavily on the experience and judgment of experts, which may lead to inconsistencies and biases. Additionally, difficulties in obtaining data or missing important data can affect the efficiency and timeliness of diagnosis. Traditional physical modeling methods struggle to analyze complex factor correlations, and conventional machine learning techniques have limited interpretability. In this paper, we propose an interpretable lost circulation analysis (ILCA) framework that provides a new method for analyzing LC. First, we use Gaussian mixture model (GMM) clustering to analyze the LC characteristics of regional case data, efficiently and accurately labeling 296 LC events. Second, we establish the relationship between geological features, drilling fluid properties, operational drilling parameters, and LC types using the XGBoost algorithm. This enables timely identification of LC types during drilling operations using real-time data, with a precision greater than 85%. Finally, we use interpretable machine learning techniques to conduct a comprehensive quantitative analysis of influencing factors based on the established XGBoost model, providing a clear explanation for the identification model. This enables drilling engineers to gain deeper insights into the factors influencing LC events. In summary, the proposed ILCA framework is capable of efficiently labeling LC types based on regional case data, identifying LC types in a timely manner using real-time data, and conducting quantitative analysis of the factors and causes of LC. This approach addresses the limitations of traditional methods and offers valuable insights for drilling engineers.
Lysophosphatidylcholines are associated with P-tau181 levels in early stages of Alzheimer’s Disease
Authors: Vardarajan Badri , Kalia Vrinda , Reyes-Dumeyer Dolly , Dubey Saurabh , Nandakumar Renu , Lee Annie , Lantigua Rafael , Medrano Martin , Rivera Diones , Honig Lawrence , Mayeux Richard , Miller Gary 
Published: January 2024

Abstract

Background
We profiled circulating plasma metabolites to identify systemic biochemical changes in clinical and biomarker-assisted diagnosis of Alzheimer’s disease (AD).
Methods
We used an untargeted approach with liquid chromatography coupled to high-resolution mass spectrometry to measure small molecule plasma metabolites from 150 clinically diagnosed AD patients and 567 age-matched healthy elderly of Caribbean Hispanic ancestry. Plasma biomarkers of AD were measured including P-tau181, Aβ40, Aβ42, total-tau, neurofilament light chain (NfL) and glial fibrillary acidic protein (GFAP). Association of individual and co-abundant modules of metabolites were tested with clinical diagnosis of AD, as well as biologically-defined AD pathological process based on P-tau181 and other biomarker levels.
Results
Over 6000 metabolomic features were measured with high accuracy. First principal component (PC) of lysophosphatidylcholines (lysoPC) that bind to or interact with docosahexaenoic acid (DHA), eicosapentaenoic acid (EPA) and arachidonic acid (AHA) was associated with decreased risk of AD (OR = 0.91 [0.89–0.96], p = 2e-04). Association was restricted to individuals without an APOE ε4 allele (OR = 0.89 [0.84–0.94], p = 8.7e-05). Among individuals carrying at least one APOE ε4 allele, PC4 of lysoPCs moderately increased risk of AD (OR = 1.37 [1.16–1.6], p = 1e-04). Essential amino acids including tyrosine metabolism pathways were enriched among metabolites associated with P-tau181 levels and heparan and keratan sulfate degradation pathways were associated with Aβ42/Aβ40 ratio.
Conclusions
Unbiased metabolic profiling can identify critical metabolites and pathways associated with β-amyloid and phosphotau pathology. We also observed an APOE-ε4 dependent association of lysoPCs with AD and biologically based diagnostic criteria may aid in the identification of unique pathogenic mechanisms.