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At least 325 records · Page 18

In-depth understanding of molecular mechanisms of aldehyde toxicity to engineer robust Saccharomyces cerevisiae

Aldehydes are ubiquitous electrophilic compounds that ferment microorganisms including Saccharomyces cerevisiae encounter during the fermentation processes to produce food, fuels, chemicals, and pharmaceuticals. Aldehydes pose severe toxicity to the growth and metabolism of the S. cerevisiae through a variety of toxic molecular mechanisms, predominantly via damaging macromolecules and hampering the production of targeted compounds. Compounds with aldehyde functional groups are far more toxic to S. cerevisiae than all other functional classes, and toxic potency depends on physicochemical characteristics of aldehydes. The yeast synthetic biology community established a design–build–test–learn framework to develop S. cerevisiae cell factories to valorize the sustainable and renewable biomass, including the lignin-derived substrates. However, thermochemically pretreated biomass-derived substrate streams contain diverse aldehydes (e.g., glycolaldehyde and furfural), and biological conversions routes of lignocellulosic compounds consist of toxic aldehyde intermediates (e.g., formaldehyde and methylglyoxal), and some of the high-value targeted products have aldehyde functional group (e.g., vanillin and benzaldehyde). Numerous studies comprehensively characterized both single and additive effects of aldehyde toxicity via systems biology investigations, and novel molecular approaches have been discovered to overcome the aldehyde toxicity. Based on those novel approaches, researchers successfully developed synthetic yeast cell factories to convert lignocellulosic substrates to valuable products, including aldehyde compounds. Here, we highlight the salient relationship of physicochemical charac- teristics and molecular toxicity of aldehydes, the molecular detoxification and macromolecules protection mechanisms of aldehydes, and the advances of engineering robust S. cerevisiae against complex mixtures of aldehyde inhibitors.

59 BASIC BIOLOGICAL SCIENCES↗

Adaptive Client Selection in Federated Learning: A Network Anomaly Detection Use Case

Federated Learning (FL) has become a ubiquitous approach for training machine learning models on decentralized data, addressing the myriad privacy concerns inherent in traditional centralized methods. However, the efficiency of FL depends on effective client selection and robust privacy preservation mechanisms. Inadequate client selection may lead to suboptimal model performance, while insufficient privacy measures risk exposing sensitive data. This paper proposes a client selection framework for FL that integrates differential privacy and fault tolerance. Our adaptive approach dynamically adjusts the number of selected clients based on model performance and system constraints, ensuring privacy through calibrated noise addition. We evaluate our method on a network anomaly detection use case using the UNSW-NB15 and ROAD datasets. Results show up to a 7% increase in accuracy and a 25% reduction in training time compared to FedL2P. Moreover, we highlight the trade-offs between privacy budgets and model performance, with higher privacy budgets reducing noise and improving accuracy. Our fault tolerance mechanism, while causing a slight performance drop, enhances robustness to client failures. Statistical validation using Mann-Whitney U tests confirms the significance of these improvements (p < 0.05).

Marfo, William [University of Texas at El Paso,Dep↗

Mechanical Behavior of Hybrids with Hyper-Connected Molecular Networks

Our research is focused on fundamental studies related to the molecular design, synthesis, characterization and modeling of molecular-reinforced hybrid glass films for superior mechanical and fracture properties. Molecular-reinforced hybrid glass films exhibit unique electro-optical properties while maintaining excellent thermal stability. They have important technological application for emerging nanoscience and energy technologies including anti-reflective and ultra-barrier layers in photovoltaics, display technologies, as well as quantum technologies. However, they are often inherently brittle in nature, do not adhere well to adjacent substrates, and exhibit poor mechanical properties. Furthermore, a robust understanding of the underlying mechanisms of deformation, fracture and fatigue has been lacking particularly given their mechanically fragile nature. The related lack of structure-property relationships between molecular structure, mechanical properties and processing represents a fundamental challenge to their integration into device technologies, compromises their thermomechanical reliability and has thwarted efforts to improve mechanical and, particularly, fracture properties.

36 MATERIALS SCIENCE↗

A Robust Data-Driven Approach for Mechanical Serial Sectioning

Mechanical serial sectioning (MSS) provides detailed microstructural information across large length scales. By repeatedly removing thin layers of material and imaging the exposed surface, a 3D representation of a specimen’s internal structure can be constructed, enabling failure analysis and feature identification that are otherwise inaccessible via conventional 2D or nondestructive evaluation techniques. Achieving consistent and accurate material removal can be challenging due to system variability, requiring an experienced operator to manually adjust parameters, prolonging data collection times and necessitating post-processing routines to standardize the data. Here, to address these challenges, this paper presents the employment of a one-step model predictive control (MPC) framework tailored to a run-to-run (R2R) controller. The R2R-MPC controller automates the parameter selection process, improving the consistency of material removal through iterative feedback for disturbance rejection and accurate tracking of the target removal rate. Using a data-driven approach, the controller robustly adapts to changing material characteristics. The effectiveness of the R2R-MPC controller is demonstrated through simulation and experimental results and compared to previous data collection procedures.

3D Materials Science↗

An Adaptive Framework for Extreme Deformation and Failure in Solids

Recent developments at Sandia in meshfree methods have delivered improved robustness in solid mechanics problems that prove difficult for traditional Lagrangian, mesh-based finite elements. Nevertheless, there remains a limitation in accurately predicting very large material deformations. It seems robust meshfree discretizations and integration schemes are necessary, but not sufficient, to close this capability gap. This state of affairs directly impacts current and future LEPs, whose simulation needs are not well met for extremely large deformation problems. We propose to use a new numerical framework, the Optimal Transportation Meshfree (OTM) method enhanced by meshfree adaptivity, as we believe that a combination of both will provide a novel way to close this capability gap.

36 MATERIALS SCIENCE↗

Extending quantum-mechanical benchmark accuracy to biological ligand-pocket interactions

Predicting the binding affinity of ligands to protein pockets is key in the drug design pipeline. The flexibility of ligand-pocket motifs arises from a range of attractive and repulsive electronic interactions during binding. Accurately accounting for all interactions requires robust quantum-mechanical (QM) benchmarks, which are scarce for ligand-pocket systems. Additionally, disagreement between “gold standard” Coupled Cluster (CC) and Quantum Monte Carlo (QMC) methods casts doubt on many benchmarks for larger non-covalent systems. We introduce the “QUantum Interacting Dimer” (QUID) benchmark framework containing 170 non-covalent (non-)equilibrium systems modeling chemically and structurally diverse ligand-pocket motifs. Symmetry-adapted perturbation theory shows that QUID broadly covers non-covalent binding motifs and energetic contributions. Robust binding energies are obtained using complementary CC and QMC methods, achieving agreement of 0.5 kcal/mol. The benchmark data analysis reveals that several dispersion-inclusive density functional approximations provide accurate energy predictions, though their atomic van der Waals forces differ in magnitude and orientation. Contrarily, semiempirical methods and empirical force fields require improvements in capturing non-covalent interactions (NCIs) for out-of-equilibrium geometries. The wide span of NCIs, highly accurate interaction energies, and analysis of molecular properties take QUID beyond the “gold standard” for QM benchmarks of ligand-protein systems.

Puleva, Mirela [University of Luxembourg, Luxembou↗

Mechanically strengthened heterogeneous Sm-Co sintered magnets

Samarium-cobalt sintered magnets offer excellent magnetic properties, thermal stability, and corrosion resistance. They are used in a variety of defense and civilian applications, especially when elevated operation temperatures (e.g., 200 ºC to 550 ºC) are required. However, the utilization of these materials is restricted by their brittleness. Improving their mechanical resilience would make them more cost-effective, efficient, and robust in decarbonization and other function-related applications while reducing the pressure on critical material supply chains. In this paper, we engineer a series of novel heterogeneous microstructures, such as laminated coarse grain (CG)/fine grain (FG) and core/shell CG/FG microstructures, to produce unprecedented combinations of superior mechanical and magnetic properties without altering the chemical compositions of the magnets or common heat treatment procedures. Further, a 60% flexural strength enhancement is obtained using heterogeneous Sm 2 (CoFeCuZr) 17 sintered magnets with little impact on their magnetic properties. The mechanically robust heterogeneous Sm-Co sintered magnets have a minor (e.g., less than 4.6%) reduction in the energy product (BH) max due to a slightly reduced squareness of the demagnetization curve, with no decrease in either the remanence (B r ) or the intrinsic coercivity (H ci ). The flexural strengths of these heterogeneous Sm-Co magnets depend on the volume ratios and mean grain sizes of the FG/CG regions, as well as their microstructural architectures. The fine-grained regions act as mechanical strengthening sites, which can be strategically used when designing the magnet for different applications. This technology is highly compatible with existing magnet manufacturing processes and thus can be adopted readily by the magnet industry.

36 MATERIALS SCIENCE↗

Quantitative analysis of Raman spectral parameters for carbon fibers: practical considerations and connection to mechanical properties

Although the literature on the Raman spectra of carbon fibers is vast, no consistent, robust predictive relationship between mechanical properties of carbon fibers and spectral parameters exists. This shortcoming is due to the use of numerous fitting functions to evaluate Raman spectra of carbon fibers and the inconsistencies in establishing the best fitting models in a statistically robust fashion. To address this gap, we present a comprehensive work on the Raman spectra of carbon fibers that combines a vast library of experimental data with a robust numerical analysis and a statistical evaluation of a wide range of suggested fitting models. This manuscript begins with a brief review of the commonly applied fitting models. Then, the Raman spectra of 32 commercially available polyacrylonitrile-based carbon fibers collected at excitation wavelengths 532, 633, and 785 nm are presented and the best fit for all fibers is evaluated based on several statistical criteria in conjunction with numerical calculations and physical arguments. The results suggest that high-performance fibers must be fit with at least five peaks, whereas high-tensile modulus fibers are best fit with at least six distinct peaks. Finally, we employ simultaneous fitting of the Raman spectra of specific fibers and wavelengths and demonstrate that strong correlations exist between mechanical properties and the D1 peak position and shape across the range of evaluated mechanical properties. Finally, we suggest straightforward improvements in fitting analysis procedures that can be implemented to increase coherency in the understanding of the underlying carbon fiber microstructure intuited from Raman spectroscopy.

36 MATERIALS SCIENCE↗

Generalized echo squeezing protocol with near-Heisenberg-limit sensitivity and strong robustness against detection noise and variation in squeezing parameter

We present a generalized echo squeezing protocol (GESP) as a generalization of the Schrödinger cat state protocol with the value of the squeezing parameter being an arbitrary number rather than π / 2 . We show analytically that over a very broad range of the squeezing parameter the sensitivity of the GESP reaches the Heisenberg limit within a factor of 2 . For a large number of atoms, N , this plateau interval is almost the whole range from zero to π / 2 , and the sensitivity is independent of the parity of N . Therefore, it is possible to operate a sensor over a wide interval of the squeezing parameter without changing the sensitivity. This is to be contrasted with the conventional echo squeezing protocol (CESP) which only works for a very small interval of the squeezing parameter. We also show that, in contrast to the CESP, the sensitivity of the GESP is close to the quantum Cramér-Rao bound over the whole range of the squeezing parameter, indicating that the phase-shift information contained in the quantum state is near-optimally extracted. We find that the enhancement in sensitivity in the case of the GESP is due to a combination of two parameters: the phase magnification factor (PMF) and the noise amplification factor (NAF). As the value of the squeezing parameter increases, both PMF and NAF increase, while keeping the ratio of the PMF to the NAF essentially constant, yielding a net enhancement of sensitivity at the Heisenberg limit within a factor of 2 over the whole plateau interval. An important consequence of this behavior is that the robustness of the GESP against detection noise easily exceeds that of the CESP for a broad range of values of the squeezing parameter. As such, in the context of an experimental study, it should be possible to achieve a net enhancement in sensitivity higher than that for the CESP, under typical conditions where detection noise exceeds the quantum projection noise of an unsqueezed state with the same number of atoms. Finally, we consider the fragility of the GESP against decoherence mechanisms, and show how a balance between the fragility against the decoherence mechanisms and the robustness against detection noise would in practice determine the optimal choice of parameters for the GESP.

Li, Jinyang↗

Quaternized Polynorbornene Random Copolymers for Fuel Cell Devices

Quaternized polymers are critical components for various energy devices. Vinyl-addition polynorbornenes provide high mechanical strength, high ion conductivity, and chemical stability in a wide range of pH environments due to the all-C–C bond backbone. In this paper, we present the synthesis of a series of quaternized polynorbornene random copolymers via vinyl addition polymerization and elucidate the impact of polymer composition on their properties. The quaternary ammonium alkyl tether length and the ratio of n-hexylnorbornene to unsubstituted norbornene are systemically tailored. A copolymer of 5-(3-bromopropyl)-2-norbornene and norbornene with pendant trimethylammonium groups achieved hydroxide conductivity of 109 mS/cm at 80 °C with a modest water uptake of 72%. The addition of n-hexylnorbornene to the copolymer, to make a terpolymer, allows for the polymer composition to be tailored for properties, including a decrease in water uptake and higher processability, despite a slightly decreased hydroxide conductivity. Moreover, the developed membranes are chemically robust and highly mechanically stable, enabling thin membranes to be easily fabricated. This study provides insight into important design parameters for quaternized polynorbornenes for a variety of energy storage and conversion devices, especially fuel cells.

25 ENERGY STORAGE↗

Proliferated Resilient Economical Half-Meter Aperture Space Telescopes (PREEMPT)

The PREEMPT LDRD was motivated by a major national need for better space-based imaging systems that are both high performing and affordable for the US Government. Current optical payloads for intelligence, surveillance and reconnaissance (ISR) and space domain awareness (SDA) missions can cost hundreds of millions of dollars and take years to develop, which makes it difficult to build the large constellations required for persistent, world-wide coverage. To address this, the team aimed to advance a different kind of large-aperture (>25 cm) telescope, called a monolithic telescope, in which key optical surfaces are built into a single piece of fused silica. This design greatly reduces payload and spacecraft complexity, the need for precision focus actuators, improves mechanical and thermal robustness, and lowers cost when compared with traditional Cassegrain telescopes that rely on many precisely aligned components. The project focused on five primary thrusts. The first thrust was to advance the concept of a V10, 25 cm, monolithic telescope forward from optical design to flight-ready stage. This was accomplished in partnership with Optimax, who delivered the first test unit in the early stages of the LDRD. The team developed several technologies necessary for this optic to be integrated into a flight demonstration. These include carbon fiber housings, highly detailed structural and thermal models and stress-reducing elastic averaging Hirth groove designs. These technologies resulted in a successful maturation of the optic, which is now slated to fly in late 2026/early 2027 for a demonstration mission. The second thrust was to advance the manufacturability of these optics. In collaboration with NIF’s optical manufacturing shop, we reduced polishing time from 480 hours to 65 hours through the implementation of optimized processes and new tools. The NIF team utilized a conceptual V8 (18 cm) optic to demonstrate this optimization, though it can be applied to the rest of the monolithic optic portfolio. Third, the team developed the first conceptual V20 (50 cm) payload, which is slated to be the next generation of LLNL optical payload systems. A set of structural, dynamic and thermal simulations were performed to identify potential challenges in the future development of this payload. Early-stage simulations suggest the payload is feasible, though thermal management will be the key focus area to maintain optimal performance. Fourth, a non-linear model of Viton was developed, to further enhance the reliability of our structural and dynamic models for future payloads. Viton acts as the primary interface material between the optic and its housing. Lastly, the team focused on successfully displaying the feasibility of using additively manufactured metal composites for optical space payloads. The team successfully demonstrated layer by layer deposition of Al-SiC composites, which have highly tunable structural and coefficient of thermal expansion (CTE) properties. These are crucial for optical payloads because CTE mismatch is one of the causes for degraded optical performance for telescopes in orbit. Overall, the work showed that monolithic telescopes could become a practical, lower-cost path to high-resolution space imaging for both national security and scientific missions.

42 ENGINEERING↗

Mechanistic study of heterogeneous propene metathesis on WO x /SiO 2 catalysts

Silica-supported tungsten oxides are widely used industrial catalysts for olefin metathesis due to their low cost and robustness, yet the mechanisms for heterogeneously catalyzed metathesis reactions remain comparatively less understood. In this work, density-functional theory (DFT) calculations were used to study the model reactions of propene metathesis. Our calculations confirm that the metathesis reactions catalyzed by WO x /SiO 2 largely follow the Chauvin cycle, with an overall energetic barrier of 142 kJ/mol. To understand how the initial alkylidene active sites are generated, three mechanisms were examined: The pseudo-Wittig mechanism was found to be most favorable and proceeds with a metallacycle intermediate, while the allylic and vinylic C-H activations are much more difficult and require the reduction of surface sites to W(+4). Relative to the adsorbed reactant state, the overall intrinsic barriers for three mechanisms were computed to be 193, 261, and 355 kJ/mol, respectively. In conclusion, the higher barriers for active-site formation than for the metathesis cycle are consistent with the difficult, high-temperature pretreatment required in experiments to activate WO x /SiO 2 catalysts.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Using Complex Probability Amplitudes to Simulate Solute Transport in Composite Porous Media

Probability amplitudes are fundamental to quantum mechanics and offer robust descriptions of complicated systems, which have allowed physicists to explain behaviors inaccessible to classical physics. This article ponders how some of the same conceptual underpinnings of the mathematics used for modeling quantum systems might be applied to subsurface water resources problems and speculates how these tools could facilitate applications on quantum computers. A probability amplitude-based model for describing advective-dispersive transport in porous media using linear operators is investigated. The proposed complex valued model decomposes spreading into two “sub-continuum partial dispersion” coefficients, and this recovers classical spreading when the sum of these coefficients is the Fickian dispersion coefficient. However, the probability amplitudes have a manyto-one relationship to a probability distribution, so it embeds a level of heterogeneity into seemingly equivalent functions. Two propagators with different sub-continuum coefficients may have the same macroscopic behavior when either is considered in isolation, but when they act on the other the system’s behavior changes. Additionally, differences in the amplitudes cause a reduction in spreading as velocity correlations are disrupted, despite both propagators having identical dispersion coefficients, and this cannot be achieved using classical methods without changing the dispersion coefficient. The main point is that these amplitude-based models offer a way to embed information about the system into the propagators, instead of just “averaging it out” when making an upscaled model.

54 ENVIRONMENTAL SCIENCES↗

Conserved enhancers control notochord expression of vertebrate Brachyury

The cell type-specific expression of key transcription factors is central to development and disease. Brachyury/T/TBXT is a major transcription factor for gastrulation, tailbud patterning, and notochord formation; however, how its expression is controlled in the mammalian notochord has remained elusive. Here, we identify the complement of notochord-specific enhancers in the mammalian Brachyury/T/TBXT gene. Using transgenic assays in zebrafish, axolotl, and mouse, we discover three conserved Brachyury-controlling notochord enhancers, T3, C, and I, in human, mouse, and marsupial genomes. Acting as Brachyury-responsive, auto-regulatory shadow enhancers, in cis deletion of all three enhancers in mouse abolishes Brachyury/T/Tbxt expression selectively in the notochord, causing specific trunk and neural tube defects without gastrulation or tailbud defects. The three Brachyury-driving notochord enhancers are conserved beyond mammals in the brachyury/tbxtb loci of fishes, dating their origin to the last common ancestor of jawed vertebrates. Our data define the vertebrate enhancers for Brachyury/T/TBXTB notochord expression through an auto-regulatory mechanism that conveys robustness and adaptability as ancient basis for axis development.

59 BASIC BIOLOGICAL SCIENCES↗

Coefficient-to-Basis Network: a fine-tunable operator learning framework for inverse problems with adaptive discretizations and theoretical guarantees

We propose a Coefficient-to-Basis Network (C2BNet), a novel framework for solving inverse problems within the operator learning paradigm. C2BNet efficiently adapts to different discretizations through fine-tuning, using a pre-trained model to significantly reduce computational cost while maintaining high accuracy. Unlike traditional approaches that require retraining from scratch for new discretizations, our method enables seamless adaptation without sacrificing predictive performance. Furthermore, we establish theoretical approximation and generalization error bounds for C2BNet by exploiting low-dimensional structures in the underlying datasets. Our analysis demonstrates that C2BNet adapts to low-dimensional structures without relying on explicit encoding mechanisms, highlighting its robustness and efficiency. To validate our theoretical findings, we conducted extensive numerical experiments that showcase the superior performance of C2BNet on several inverse problems. The results confirm that C2BNet effectively balances computational efficiency and accuracy, making it a promising tool to solve inverse problems in scientific computing and engineering applications.

97 MATHEMATICS AND COMPUTING↗

Enhancing Smart Home Privacy: A Tutorial on Local Differential Privacy Techniques for Frequency and Mean Estimation

The ubiquity of Internet of Things (IoT) systems has seamlessly integrated into our daily lives, particularly in smart homes where devices continuously monitor and optimize our living environments. These systems significantly contribute to home automation, energy efficiency, and overall comfort. However, this widespread connectivity poses inherent risks linked to the streaming of sensitive household data, necessitating robust privacy preservation mechanisms. This tutorial systematically examines privacy preservation through local differential privacy (LDP), with a particular focus on frequency and mean estimation techniques for smart home applications. Here, we present a comprehensive taxonomy of smart home data formats and provide detailed implementation guidance for event-based and w-event LDP mechanisms. Through practical examples using smart thermostats and HVAC systems, we demonstrate how these techniques can be effectively deployed in real-world scenarios. The tutorial concludes by examining emerging research directions, including adaptive privacy budgets and federated learning approaches, establishing a foundation for privacy-preserving smart home deployments.

Kotevska, Olivera [Oak Ridge National Laboratory (↗

Achieving Runtime State Verification Assurance in Critical Cyber-Physical Infrastructures

Industrial Cyber-Physical Systems (ICPS) are an essential backbone of national critical infrastructures. They help monitor and control crucial cyber-enabled services such as energy generation. Commonly ICPS monitors the physical process through Supervisory Control and Data Acquisition (SCADA) systems. The SCADA ecosystem takes critical real-time and future system operational decisions based on the runtime state behavior of field sensors. Traditional SCADA systems use legacy and insecure communication protocols such as the Modbus protocol that lack adequate security mechanisms to provide robust runtime state behavior assurance of constrained field sensors. Therefore, constrained field sensors are commonly vulnerable to standard semantic attacks that gradually change the behavior state of infected devices. This paper discusses process integrity assurance techniques necessary to enhance the security of behavior-based protocols such as the Modbus protocol. The Runtime State Verification (RSV) protocol proposed in this paper aims to address semantic attacks in the SCADA ecosystem by integrating behavior-based Mandatory Results Automata (MRA) and a Hyperledger Fabric (HLF) network. The RSV protocol provides high process integrity assurance through enhanced behavior-based MRA suitable for the constrained field devices. A proof of concept of the RSV protocol has been evaluated in an emulated water-tube boiler. Preliminary evaluations of the RSV protocol aimed to measure the efficiency of the proposed protocol by monitoring an Combustion Efficiency (CE) process necessary to preserve optimal combustion, thus minimizing costs and future maintenance of water-tube boilers. We analyze the overall network overhead and latency of the proposed RSV protocol by evaluating the HLF network performance and comparing the proposed RSV protocol with the state-ofart BloSPAI protocol. Through the preliminary evaluations of the proposed RSV protocol, this paper demonstrates that the proposed RSV protocol overcomes the shortcomings and network overhead of the BloSPAI protocol by integrating behavior-based authentication through novel MRAs and HLF networks.

Rivera, Abel Gomez↗

Interface Problem Formulation Improvements with Application to Nuclear Fuel Performance Analysis

The U.S. Department of Energy’s Nuclear Energy Advanced Modeling and Simulation Program aims to develop predictive capabilities by applying computational methods to the analysis and design of advanced reactor and fuel cycle systems. This program has been providing engineering scale support for the development of BISON, a high-fidelity and high-resolution fuel performance tool. This report documents new developments and robustness improvements in mechanical and thermal (gap heat transfer) contact formulations. The improvements range from the migration of industrial level (“assessment”) nuclear fuel model setups to the usage of mortar formulations, the addition of frictional contact to one-dimensional layered representations of fuel and cladding components, and the addition of the Petrov-Galerkin approach to dual mortar, which improves performance on curved, relatively coarse meshes. In addition, the Lagrange-multiplier enforcement of mechanical mortar contact constraints has been extended to two additional types of enforcement: penalty and augmented Lagrange-Uzawa. We show that the latter approach yields the same interface results as dual mortar in the Multiphysics Object-Oriented Simulation Environment, with the advantage of not worsening the condition number of the system matrix—thereby enabling the use of some general implementations of iterative preconditioners, at the expense of additional system evaluations (i.e., augmentations).

42 ENGINEERING↗