3D Model Research Articles

On simulations of 3D fractional WBBM model through mathematical and graphical analysis with the assists of fractionality and unrestricted parameters

This study retrieves some novel exact solutions to the family of 3D space–time fractional Wazwaz–Benjamin–Bona–Mahony (WBBM) equations in the context of diverse nonlinear physical phenomena resulting from water wave mechanics. The family of WBBM equations is transformed for this purpose using a space and time fractional transformation into an ordinary differential equation (ODE). The ODE then uses a strong method, namely the Unified Method. Consequently, lump solutions, dark-bright soliton, singular and multiple soliton solutions, and periodic solutions are investigated. The disparities between the current study's conclusions and previously acquired solutions via other approaches are examined. All wave solutions produced are determined to be novel in terms of fractionality, unrestricted parameters, and implemented technique sense. The impact of unrestricted parameters and fractionality on the obtained solutions are visually presented, along with physical explanations. It is observed that the wave portents are varied with the increase of unrestricted parameters as well as fractionality. We dynamically showed that the appropriate transformation and the applied Unified approach more proficient in the study of water wave dynamics and might be used in future researches to clarify the many physical phenomena. The novelty of this work validate that the proposed method seem simple and useful tools for obtaining the solutions in PDEs and it is expected to use in mathematical physics and optical engineering.

Tracking shifts in forest structural complexity through space and time in human‐modified tropical landscapes

Habitat structural complexity is an emergent property of ecosystems that directly shapes their biodiversity, functioning and resilience to disturbance. Yet despite its importance, we continue to lack consensus on how best to define structural complexity, nor do we have a generalised approach to measure habitat complexity across ecosystems. To bridge this gap, here we adapt a geometric framework developed to quantify the surface complexity of coral reefs and apply it to the canopies of tropical rainforests. Using high‐resolution, repeat‐acquisition airborne laser scanning data collected over 450 km2 of human‐modified tropical landscapes in Borneo, we generated 3D canopy height models of forests at varying stages of recovery from logging. We then tested whether the geometric framework of habitat complexity – which characterises 3D surfaces according to their height range, rugosity and fractal dimension – was able to detect how both human and natural disturbances drive variation in canopy structure through space and time across these landscapes. We found that together, these three metrics of surface complexity captured major differences in canopy 3D structure between highly degraded, selectively logged and old‐growth forests. Moreover, the three metrics were able to track distinct temporal patterns of structural recovery following logging and wind disturbance. However, in the process we also uncovered several important conceptual and methodological limitations with the geometric framework of habitat complexity. We found that fractal dimension was highly sensitive to small variations in data inputs and was ecologically counteractive (e.g. higher fractal dimension in oil palm plantations than old‐growth forests), while rugosity and height range were tightly correlated (r = 0.75) due to their strong dependency on maximum tree height. Our results suggest that forest structural complexity cannot be summarised using these three descriptors alone, as they overlook key features of canopy vertical and horizontal structure that arise from the way trees fill 3D space.Keywords: Forest disturbance, LiDAR, logging, recovery, remote sensing, structural complexity

Synthesis, characterization, and anti-cancer potential of novel p53-mediated Mdm2 and Pirh2 modulators: an integrated In silico and In vitro approach

Introduction: Leukemia is a global health concern that requires alternative treatments due to the limitations of the FDA-approved drugs. Our focus is on p53, a crucial tumor suppressor that regulates cell division. It appears possible to stabilize p53 without causing damage to DNA by investigating dual-acting inhibitors that target both ligases. The paper aims to identify small molecule modulators of Mdm2 and Pirh2 by using 3D structural models of p53 residues and to further carry out the synthesis and evaluation of hit candidates for anti-cancer potency by in vitro and in silico studies.Methods: We synthesized structural analogues of MMs02943764 and MMs03738126 using a 4,5-(substituted) 1,2,4-triazole-3-thiols with 2-chloro N-phenylacetamide in acetone with derivatives of PAA and PCA were followed. Cytotoxicity assays, including MTT, Trypan Blue Exclusion, and MTS assays, were performed on cancer cell lines. Anti-proliferation activity was evaluated using K562 cells. Cell cycle analysis and protein expression studies of p53, Mdm2, and Pirh2 were conducted using flow cytometry.Results: As for results obtained from our previous studies MMs02943764, and MMs03738126 were selected among the best-fit hit molecules whose structural analogues were further subjected to molecular docking and dynamic simulation. Synthesized compounds exhibited potent anti-proliferative effects, with PAC showing significant cytotoxicity against leukemia cells. PAC induced cell cycle arrest and modulated p53, Mdm2, and Pirh2 protein expressions in K562 cells. Molecular docking revealed strong binding affinity of PAC to p53 protein, further confirmed by molecular dynamics simulation.Discussion: The study presents novel anticancer compounds targeting the p53 ubiquitination pathway, exemplified by PAC. Future perspectives involve further optimization and preclinical studies to validate PAC’s potential as an effective anticancer therapy.

Scaffold-free development of multicellular tumor spheroids with spatial characterization of structure and metabolic radial profiles

Abstract Purpose In vitro assays are essential for studying cellular biology, but traditional monolayer cultures fail to replicate the complex three-dimensional (3D) interactions of cells in living organisms. 3D culture systems offer a more accurate reflection of the cellular microenvironment. However, 3D cultures require robust and unique methods of characterization. Methods The goal of this study was to create a 3D spheroid model using cancer cells and macrophages, and to demonstrate a custom image analysis program to assess structural and metabolic changes across spheroid microregions. Results Structural characterization shows that cells at the necrotic core show high normalized fluorescence intensities of CD206 (M2 macrophages), cellular apoptosis (cleaved caspase-3, CC3), and hypoxia (HIF-1α and HIF-2α) compared to the proliferative edge, which shows high normalized fluorescence intensities of CD80 (M1 macrophages) and cellular proliferation (Ki67). Metabolic characterization was performed using multiphoton microscopy and fluorescence lifetime imaging (FLIM). Results show that the mean NADH lifetime at the necrotic core (1.011 ± 0.086 ns) was lower than that at the proliferative edge (1.105 ± 0.077 ns). The opposite trend is shown in the A1/A2 ratio (necrotic core: 4.864 ± 0.753; proliferative edge: 4.250 ± 0.432). Conclusion Overall, the results of this study show that 3D multicellular spheroid models can provide a reliable solution for studying tumor biology, allowing for the evaluation of discrete changes across all spheroid microregions.

A dataset of topographic correction coefficients for shortwave downward radiation over the Pan-Third Pole

Prevalent Shortwave downward radiation (SWDR) estimates assume a flat surface, neglecting topographic effects and leading to significant errors in mountainous regions. We introduce SWDR topography correction coefficients (TCCs), based on the mountain radiative transfer model tailored for the Pan-Third Pole region. This dataset effectively bridges the disparities between flat-surface SWDR and rugged-surface SWDR, forming part of the Long-term Earth System spatiotemporally Seamless Radiation budget dataset (LessRad). Validation results using a three-dimensional radiative transfer model demonstrate the efficacy of this method in correcting solar direct radiation, sky diffuse radiation, and SWDR under diverse conditions. At a spatial resolution of 2.5 arc-minutes, the correction accuracy for solar direct radiation is characterized by a coefficient of determination (R²) of 0.998, a relative root mean square error (rRMSE) of 2.4%, and a relative bias (rbias) of 0.8%. For sky diffused radiation, an R² of 0.965, a rRMSE of 1.2%, and a rbias of −0.8%. SWDR corrections under clear and cloudy skies also show high accuracy, demonstrating the robustness of the TCCs approach.

3D electromagnetic assessment of bended CORC® cables

Conductor on round core (CORC®) cables have emerged as a leading contender in high-temperature superconducting (HTS) cable designs, offering exceptional performance with current densities surpassing 300 A/mm2 and the ability to withstand high axial tensile and compressive strain. Despite their remarkable properties, optimizing CORC® cables remains a challenge, particularly in accurately estimating their AC losses under real-world conditions, which necessitates advanced numerical modeling techniques. Building upon recent advancements in simulating straight CORC® cables, where Bean’s-like current profiles were observed across the actual thickness of wound superconducting tapes, we introduce a tailored computational approach to enhance the processing speed of three-dimensional (3D) finite element models of wound HTS tapes. This tailored approach is specifically designed to address the complexities of bent CORC® cables, which exhibit helicoidal winding and are subjected to varying mechanical strain. We focus on analyzing their electromagnetic performance by transitioning from idealized straight-former designs to more realistic scenarios where cable-formers are bent to accommodate flexible cable routing or coil configurations. Our simulations consider a typical cable design comprising three 4 mm-wide SuperPower tapes (SCS4050) with a twist pitch of 40 mm. We demonstrate the capability to accurately model the full electromagnetic behavior of bent CORC® cables without the reduction of degrees of freedom, providing valuable insights into their performance under bending conditions. Our findings contribute to the ongoing optimization of CORC® cable designs for a wide range of practical applications in high-current and high-magnetic field environments.

Three-dimensional lung parenchyma model for studies of Aspergillus fumigatus infection and antifungal treatment.

Aim: This work aims to standardize the three-dimensional hydroxyethyl-alginate-gelatin (HAG) scaffold as a model to evaluate Aspergillus fumigatus biofilm and antifungal treatments. Methods: The scaffold was characterized by physical, rheological and microscopic analyses; the antibiofilm action was evaluated by determination of cfu and metabolic activity. Results: The scaffold was non-toxic showing stability in aqueous media, swelling capacity, elasticity and had homogeneously distributed pores averaging 190μm. The A. fumigatus biofilm established itself very well on the scaffold and treatment with amphotericin B and voriconazole reduced viable cells and metabolic activity. Conclusion: The HAG scaffold proved to be a model to mimic lung parenchyma, suitable for establishing a 3D biofilm culture of A. fumigatus and evaluating the efficacy of antifungals.

Prediction of formation abrasiveness under the action of a PDC bit based on the fractal dimension of a rock surface

During rock drilling, a drill bit will wear as it breaks the rock. However, there is no uniform grading standard for rock abrasiveness. To solve this problem, the wear mechanisms of a polycrystalline diamond compact (PDC) bit and the formation it is drilling into are analyzed in depth, and an abrasiveness evaluation method based on the fractal dimension of the rock surface topography is established. Initially, a three-dimensional digital model is generated from a scanning electron microscope image of the rock after drilling; next, an evaluation of the irregularities on the rock surface is performed using an adapted Weierstrass–Mandelbrot (W-M) function to ascertain the fractal dimensionality. Then, the microcontact characteristics of the contact surface between the formation and the PDC bit are analyzed, and the distribution of the microconvex contact points of the two-body friction pair in a region is obtained. Because the sliding friction between the drill bit and the rock produces a large amount of heat, according to the contact area formula of the friction surface and heat conduction theory, the temperature rise and overall temperature distribution of the formation and PDC bit under the condition of sliding friction are revealed, and the real contact area between the formation and the drill bit within a certain temperature range is obtained. Finally, the evaluation index of rock abrasiveness under sliding conditions is established by adopting the wear weight loss of the rock cutting tool per unit volume as the index of rock abrasiveness, and the model is verified by a microdrilling experiment. The research in this paper is highly important for improving the rock-breaking efficiency and bit service life during drilling.

Physics-informed neural network estimation of material properties in soft tissue nonlinear biomechanical models

AbstractThe development of biophysical models for clinical applications is rapidly advancing in the research community, thanks to their predictive nature and their ability to assist the interpretation of clinical data. However, high-resolution and accurate multi-physics computational models are computationally expensive and their personalisation involves fine calibration of a large number of parameters, which may be space-dependent, challenging their clinical translation. In this work, we propose a new approach, which relies on the combination of physics-informed neural networks (PINNs) with three-dimensional soft tissue nonlinear biomechanical models, capable of reconstructing displacement fields and estimating heterogeneous patient-specific biophysical properties and secondary variables such as stresses and strains. The proposed learning algorithm encodes information from a limited amount of displacement and, in some cases, strain data, that can be routinely acquired in the clinical setting, and combines it with the physics of the problem, represented by a mathematical model based on partial differential equations, to regularise the problem and improve its convergence properties. Several benchmarks are presented to show the accuracy and robustness of the proposed method with respect to noise and model uncertainty and its great potential to enable the effective identification of patient-specific, heterogeneous physical properties, e.g. tissue stiffness properties. In particular, we demonstrate the capability of PINNs to detect the presence, location and severity of scar tissue, which is beneficial to develop personalised simulation models for disease diagnosis, especially for cardiac applications.

Intangible cultural heritage based on finite element analysis: force analysis of Chinese traditional garden rockery construction

In traditional Chinese rockery stacking, the peculiarity of the materials and reliance on the personal experience of artisans during the construction process make it challenging to scientifically quantify the structural stress and use scientific methods to ensure the stability of rockery structures and the safety of the construction process. Therefore, the intangible cultural heritage of rockery stacking technology faces the problem of scientific structural inspection and risk estimation during the construction process. This study uses a finite element analysis to evaluate the structural stress of the rockery-stacking site to contribute to the sustainable development and protection of this intangible cultural heritage. After establishing a three-dimensional digital model, mechanical calculations are carried out for the overall structure of the rockery and its different parts. The analysis identifies three types of structural factors in artificial rockeries: contact, structure, and load. It also effectively and intuitively identifies the weak points in the rockery structures and provides an assessment of risks, offering valuable insights for risk prevention and for the construction and maintenance of the structures. These results contribute to the structural safety inspection of traditional Chinese rockery stacking and the structural evaluation of existing rockery heritage.

Research and implementation of three-dimensional modeling techniques for Chinese dragon

This paper delves into a new trend in the field of computer science, which involves a shift from complex code editing techniques of the past towards more intuitive visual software applications. Under this trend, modeling and rendering techniques have undergone long-term development and continuous iteration, becoming indispensable tools across various domains. Using the construction of a Chinese dragon model as a case study, this paper showcases the application and development of this new trend through a detailed description of the selected software tools' characteristics, classification of production steps, and the modeling process. Special emphasis was placed on shaping key details such as the dragon's body contour, scales, eyes, etc., during the dragon model construction process, as well as how these details are manifested in software applications. Software selection and utilization were carefully aligned with practical needs and technical features to ensure the efficiency and accuracy of the modeling process. In-depth research into the modeling process revealed the potential and advantages of this new technology, receiving widespread acclaim and recognition.

Electroneutral Layer Dynamics Drive Ion Migration in Low Frequency AC Electrophoresis Below the Water Electrolysis Threshold.

Low-frequency AC electrophoresis lies in a regime between DC microchannel electrophoresis and dielectrophoresis, which typically utilizes frequencies above 1000 Hz. Although few electrophoretic methods have been reported in this ≤100 Hz range, traveling wave electrophoresis (TWE) and transverse AC electrophoresis (TrACE) operate in this frequency range, and use low voltages to avoid bubble formation from water electrolysis. TWE provides molecular separations with enhanced control and TrACE provides multiplexed, multiparameter particle characterization. However, two related fundamental questions remain about the mechanisms of electrophoretic migration in these systems. First, particle electrophoresis in TrACE is largely captured by a simple model that combines the alternating electric field with DC electrokinetics, but a deviation from the model is observed for applied square electric field waves that increases with decreasing frequency. Second, although electrode charging is believed to drive ion migration in TWE, the estimated electrode charging time is about 2-3 orders of magnitude faster than the wave period. In this study, a 1D finite numerical model that excludes Faradaic reactions simulates ion and particle migration across the microchannel width in TrACE. The 1D model results show good agreement with both particle and ion migration in TrACE systems. Furthermore, although ion migration between the pair of electrodes slows during each excursion of a 1 Hz square wave, there is substantial ion migration throughout the 0.5 s half-period. This modeling result agrees with experimental observations in TWE. Therefore, the clarification of the mechanisms of ion migration in these low-frequency and low-voltage AC electrophoresis is expected to expand their applications.

Selective anticancer effects of plasma-activated saline in 3D tumor model co-culturing of normal cells and cancer cells

Compared with conventional two-dimensional (2D) cell culture model, the 3D tumor model constructed in vitro is better representative of the tumor microenvironment in vivo. Here, we proposed the utilization of 3D tumor model of co-cultured cancer cells and normal cells to evaluate the selective anticancer effects of cold atmospheric plasma-activated saline (PAS), and expected to provide more precise information about PAS-tumor interactions. By cell sorting, we clarified that A375 melanoma cells and HaCaT normal skin cells purified from the 3D multicellular tumor model differ in sensitivity and responsiveness to PAS compared to the 2D culture model. And during the optimization of PAS treatment parameters, we further found that A375 cells were almost completely killed while HaCaT cells were still present in large numbers after 5 d of certain PAS treatment. Our experiment innovatively carries out the selective study of plasma technology in 3D co-culture system and provides a theoretical basis for further clinical and practical applications of PAS.

The lateralization and distalization index is more reliable than angular radiographic measurements in reverse shoulder arthroplasty.

The lateralization shoulder angle (LSA) and distalization shoulder angle (DSA) are used to reproducibly measure lateralization and distalization after reverse shoulder arthroplasty (RSA). However, LSA and DSA may not offer a precise measurement of humeral lateralization and distalization and this relationship has not been explored. The aim of this study was to evaluate the validity of these measurements and to propose new measurement methods to estimate implant lateralization and distalization. 3D models were constructed from computed tomography (CT) scans of 30 patients using a software platform. For each patient 24 different RSA modifications were created, resulting in 720 different RSA configurations. For each configuration LSA and DSA angles as well as lateralization and distalization distances were measured. Moreover, for each configuration two new measurements were done: the lateralization index (LI) and distalization index (DI). Correlations of the lateralization and distalization parameters were evaluated between measurements. Weak correlations were founded between LSA and lateralization (r = 0.36, p < 0.01), whereas moderate correlations were observed between LI and lateralization (r = 0.72, p < 0.01). No significant correlations were found between DSA and distalization (r = 0.17, p = 0.113). In contrast, moderate correlations were identified between DI and distalization (r = 0.69, p < 0.01). LI and DI are more reliable methods to estimate implant lateralization and distalization compared to angular radiographic measurements. However, the prognostic significance in predicting clinical outcomes after RSA remains unknown.

Assessment of BFX cup version in a three-dimensional model simulating the ventrodorsal radiographic view.

To measure truncated face and open face versions of the biological fixation (BFX) cup in a three-dimensional (3D) model simulating the ventrodorsal radiographic projection with different cup and pelvis positions. Computer simulation. Simulated ventrodorsal views were generated in silico using 3D models of a BFX cup and a medium-sized canine pelvis. Truncated face and open face versions of the BFX cup were defined and measured with various angles of cup version, cup inclination, and pelvic extension. Truncated face version was different from and underestimated open face version by 12° to 22° (p < .001). Open face version varied with inclination while truncated face version was unaffected by inclination. Open face version was dependent on the degree of pelvic extension while truncated face version was unaffected. Open face version differed from truncated face version. Changes in open face version were not consistently matched by a change in truncated face version. The open face of the cup may be excessively retroverted without this being reflected by truncated face retroversion as seen on a ventrodorsal radiographic view. However, in this study, BFX cups placed with truncated face version and inclination in the normal range and an ALO of 45° yielded predictable open face version.

Liver Phantoms Cast in 3D-Printed Mold for Image-Guided Procedures

Introduction: Image-guided invasive procedures on the liver require a steep learning curve to acquire the necessary skills. The best and safest way to achieve these skills is through hands-on courses that include simulations and phantoms of different complications, without any risks for patients. There are many liver phantoms on the market made of various materials; however, there are few multimodal liver phantoms, and only two are cast in a 3D-printed mold. Methods: We created a virtual liver and 3D-printed mold by segmenting a CT scan. The InVesalius and Autodesk Fusion 360 software packages were used for segmentation and 3D modeling. Using this modular mold, we cast and tested silicone- and gelatin-based liver phantoms with tumor and vascular formations inside. We tested the gelatin liver phantoms for several procedures, including ultrasound diagnosis, elastography, fibroscan, ultrasound-guided biopsy, ultrasound-guided drainage, ultrasound-guided radio-frequency ablation, CT scan diagnosis, CT–ultrasound fusion, CT-guided biopsy, and MRI diagnosis. The phantoms were also used in hands-on ultrasound courses at four international congresses. Results: We evaluated the feedback of 33 doctors regarding their experiences in using and learning on liver phantoms to validate our model for training in ultrasound procedures. Conclusions: We validated our liver phantom solution, demonstrating its positive impact on the education of young doctors who can safely learn new procedures thus improving the outcomes of patients with different liver pathologies.

Generating open-source 3D phytoplankton models by integrating photogrammetry with scanning electron microscopy

The community structure and ecological function of marine ecosystems are critically dependent on phytoplankton. However, our understanding of phytoplankton is limited due to the lack of detailed information on their morphology. To address this gap, we developed a framework that combines scanning electron microscopy (SEM) with photogrammetry to create realistic 3D (three-dimensional) models of phytoplankton. The workflow of this framework is demonstrated using two marine algal species, one dinoflagellate Prorocentrum micans and one diatom Halamphora sp. The resulting 3D models are made openly available and allow users to interact with phytoplankton and their complex structures virtually (digitally) and tangibly (3D printing). They also allow for surface area and biovolume calculations of phytoplankton, as well as the exploration of their light scattering properties, which are both important for ecosystem modeling. Additionally, by presenting these models to the public, it bridges the gap between scientific inquiry and education, promoting broader awareness on the importance of phytoplankton.

ASO Visual Abstract: 3D-SARC: A Pilot Study Testing the Use of a 3D Augmented Reality Model with Conventional Imaging as a Preoperative Assessment Tool for Surgical Resection of Retroperitoneal Sarcoma.

ASO Visual Abstract: 3D-SARC: A Pilot Study Testing the Use of a 3D Augmented Reality Model with Conventional Imaging as a Preoperative Assessment Tool for Surgical Resection of Retroperitoneal Sarcoma.

Physics of microscale freeform 3D printing of ice

Ice is emerging as a promising sacrificial material in the rapidly expanding area of advanced manufacturing for creating precise 3D internal geometries. Freeform 3D printing of ice (3D-ICE) can produce microscale ice structures with smooth walls, hierarchical transitions, and curved and overhang features. However, controlling 3D-ICE is challenging due to an incomplete understanding of its complex physics involving heat transfer, fluid dynamics, and phase changes. This work aims to advance our understanding of 3D-ICE physics by combining numerical modeling and experimentation. We developed a 2D thermo-fluidic model to analyze the transition from layered to continuous printing and a 3D thermo-fluidic model for the oblique deposition, which enables curved and overhang geometries. Experiments are conducted and compared with model simulations. We found that high droplet deposition rates enable the continuous deposition mode with a sustained liquid cap on top of the ice, facilitating smooth geometries. The diameter of ice structures is controlled by the droplet deposition frequency. Oblique deposition causes unidirectional spillover of the liquid cap and asymmetric heat transfer at the freeze front, rotating the freeze front. These results provide valuable insights for reproducible 3D-ICE printing that could be applied across various fields, including tissue engineering, microfluidics, and soft robotics.

Emerging role of oncogenic ß-catenin in exosome biogenesis as a driver of immune escape in hepatocellular carcinoma.

Immune checkpoint inhibitors have produced encouraging results in cancer patients. However, the majority of ß-catenin-mutated tumors have been described as lacking immune infiltrates and resistant to immunotherapy. The mechanisms by which oncogenic ß-catenin affects immune surveillance remain unclear. Herein, we highlighted the involvement of ß-catenin in the regulation of the exosomal pathway and, by extension, in immune/cancer cell communication in hepatocellular carcinoma (HCC). We showed that mutated ß-catenin represses expression of SDC4 and RAB27A, two main actors in exosome biogenesis, in both liver cancer cell lines and HCC patient samples. Using nanoparticle tracking analysis and live-cell imaging, we further demonstrated that activated ß-catenin represses exosome release. Then, we demonstrated in 3D spheroid models that activation of β-catenin promotes a decrease in immune cell infiltration through a defect in exosome secretion. Taken together, our results provide the first evidence that oncogenic ß-catenin plays a key role in exosome biogenesis. Our study gives new insight into the impact of ß-catenin mutations on tumor microenvironment remodeling, which could lead to the development of new strategies to enhance immunotherapeutic response.