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At least 109 records · Page 6

Modeling the Solvation and Acidity of Carboxylic Acids Using an Ab Initio Deep Neural Network Potential

Formic and acetic acid constitute the simplest of carboxylic acids, yet they exhibit fascinating chemistry in the condensed phase such as proton transfer and dimerization. The go-to method of choice for modeling these rare events have been accurate but expensive ab-initio molecular dynamics simulations. Here, we present a deep neural network potential trained using accurate ab-initio data that can be used in tandem with enhanced-sampling methods to perform an efficient exploration of the free-energy surface of aqueous solutions of weak carboxylic acids. In particular, we show that our model captures proton dissociation and provides a good estimate of the pK a , as well as the dimerization of formic and acetic acid. This provides a suitable starting point for applications in different research areas where computational efficiency coupled with the accuracy of ab-initio methods is required.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Automated Pneumothorax Diagnosis using Deep Neural Networks

Thoracic ultrasound can provide information leading to rapid diagnosis of pneumothorax with improved accuracy over the standard physical examination and with higher sensitivity than anteroposterior chest radiography. However, the clinical We have Furthermore, remote environments, such as the battlefield or deep-space exploration, may lack expertise for diagnosing developed an automated image interpretation pipeline for the analysis of thoracic ultrasound data and the classification of pneumothorax events to provide decision support in such situations. Our pipeline consists of image preprocessing, data augmentation, and deep learning architectures for medical diagnosis. In this work, we demonstrate that robust, accurate interpretation of chest images and video can be achieved using deep neural networks. A number of novel image processing techniques were employed to achieve this result. Affine transformations were applied for data augmentation. Hyperparameters were optimized for learning rate, dropout regularization, batch size, and epoch iteration by a sequential model-based Bayesian approach. In addition, we utilized pretrained architecturesinterpretation of a patient medical image is highly operator dependent. certain pathologies., applying transfer learning and fine-tuning techniques to fully connected layers. Our pipeline yielded binary classification validation accuracies of 98.3% for M-mode images and 99.8% with B-mode video frames.

US Army collaboration↗

Identification of hadronic tau lepton decays using a deep neural network

A new algorithm is presented to discriminate reconstructed hadronic decays of tau leptons ($\tau_\mathrm{h}$) that originate from genuine tau leptons in the CMS detector against $\tau_\mathrm{h}$ candidates that originate from quark or gluon jets, electrons, or muons. The algorithm inputs information from all reconstructed particles in the vicinity of a $\tau_\mathrm{h}$ candidate and employs a deep neural network with convolutional layers to efficiently process the inputs. This algorithm leads to a significantly improved performance compared with the previously used one. For example, the efficiency for a genuine $\tau_\mathrm{h}$ to pass the discriminator against jets increases by 10-30% for a given efficiency for quark and gluon jets. Furthermore, a more efficient $\tau_\mathrm{h}$ reconstruction is introduced that incorporates additional hadronic decay modes. The superior performance of the new algorithm to discriminate against jets, electrons, and muons and the improved $\tau_\mathrm{h}$ reconstruction method are validated with LHC proton-proton collision data at $\sqrt{s} =$ 13 TeV.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Improving missing transverse momentum estimation with a deep neural network

At hadron colliders, the net transverse momentum of particles that do not interact with the detector (missing transverse momentum, $^→_𝑝$$^{miss}_{T}$) is a crucial observable in many analyses. In the standard model, $^→_𝑝$$^{miss}_{T}$ originates from neutrinos. Many beyond-the-standard-model particles, such as dark matter candidates, are also expected to leave the experimental apparatus undetected. This paper presents a novel deep neural network based $^→_𝑝$$^{miss}_{T}$ estimator, DeepMET, developed by the CMS Collaboration at the LHC. The DeepMET algorithm produces a weight for each reconstructed particle based on its properties. The estimator is based on the negative vector sum of the weighted transverse momenta of all reconstructed particles in an event. Compared with other estimators currently employed by CMS, DeepMET improves the $^→_𝑝$$^{miss}_{T}$ resolution by 10%–30%, shows improvement for a wide range of final states, is easier to train, and is more resilient against the effects of additional proton-proton interactions accompanying the collision of interest.

artificial neural networks↗

Viscosity in water from first-principles and deep-neural-network simulations

Abstract We report on an extensive study of the viscosity of liquid water at near-ambient conditions, performed within the Green-Kubo theory of linear response and equilibrium ab initio molecular dynamics (AIMD), based on density-functional theory (DFT). In order to cope with the long simulation times necessary to achieve an acceptable statistical accuracy, our ab initio approach is enhanced with deep-neural-network potentials (NNP). This approach is first validated against AIMD results, obtained by using the Perdew–Burke–Ernzerhof (PBE) exchange-correlation functional and paying careful attention to crucial, yet often overlooked, aspects of the statistical data analysis. Then, we train a second NNP to a dataset generated from the Strongly Constrained and Appropriately Normed (SCAN) functional. Once the error resulting from the imperfect prediction of the melting line is offset by referring the simulated temperature to the theoretical melting one, our SCAN predictions of the shear viscosity of water are in very good agreement with experiments.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Physics informed deep neural network embedded in a chemical transport model for the Amazon rainforest

Secondary organic aerosols (SOA) are fine particles in the atmosphere, which interact with clouds, radiation and affect the Earth’s energy budget. SOA formation involves chemistry in gas phase, aqueous aerosols, and clouds. Simulating these chemical processes involve solving a stiff set of differential equations, which are computationally expensive steps for three-dimensional chemical transport models. Deep neural networks (DNNs) are universal function approximators that could be used to represent the complex nonlinear changes in aerosol physical and chemical processes; however, key challenges such as generalizability to extended time periods, preservation of mass balance, simulating sparse model outputs, and maintaining physical constraints have limited their use in atmospheric chemistry. Here, we develop an approach of using a physics-informed DNN that overcomes previous such challenges and demonstrates its applicability for the chemical formation processes of isoprene epoxydiol SOA (IEPOX-SOA) over the Amazon rainforest. The DNN is trained with data generated by simulating IEPOX-SOA over the entire atmospheric column, using the Weather Research and Forecasting Model coupled with Chemistry (WRF-Chem). The trained DNN is then embedded within WRF-Chem to replace the computationally expensive default solver of IEPOX-SOA formation. The trained DNN predictions generalizes well with the default model simulation of the IEPOX-SOA mass concentrations and its size distribution (20 size bins) over several days of simulations in both dry and wet seasons. The embedded DNN reduces the computational expense of WRF-Chem by a factor of 2. Our approach shows promise in terms of application to other computationally expensive chemistry solvers in climate models.

54 ENVIRONMENTAL SCIENCES↗

Bioplastic design using multitask deep neural networks

Abstract Non-degradable plastic waste jeopardizes our environment, yet our modern lifestyle and current technologies are impossible to sustain without plastics. Bio-synthesized and biodegradable alternatives such as polyhydroxyalkanoates (PHAs) have the potential to replace large portions of the world’s plastic supply with cradle-to-cradle materials, but their chemical complexity and diversity limit traditional resource-intensive experimentation. Here, we develop multitask deep neural network property predictors using available experimental data for a diverse set of nearly 23,000 homo- and copolymer chemistries. Using the predictors, we identify 14 PHA-based bioplastics from a search space of almost 1.4 million candidates which could serve as potential replacements for seven petroleum-based commodity plastics that account for 75% of the world’s yearly plastic production. We also discuss possible synthesis routes for the identified promising materials.

36 MATERIALS SCIENCE↗

Heat transport in liquid water from first-principles and deep neural network simulations

In this work, we compute the thermal conductivity of water within linear response theory from equilibrium molecular dynamics simulations, by adopting two different approaches. In one, the potential energy surface (PES) is derived on the fly from the electronic ground state of density functional theory (DFT) and the corresponding analytical expression is used for the energy flux. In the other, the PES is represented by a deep neural network (DNN) trained on DFT data, whereby the PES has an explicit local decomposition and the energy flux takes a particularly simple expression. By virtue of a gauge invariance principle, established by Marcolongo, Umari, and Baroni, the two approaches should be equivalent if the PES were reproduced accurately by the DNN model. We test this hypothesis by calculating the thermal conductivity, at the GGA (PBE) level of theory, using the direct formulation and its DNN proxy, finding that both approaches yield the same conductivity, in excess of the experimental value by approximately 60%. Besides being numerically much more efficient than its direct DFT counterpart, the DNN scheme has the advantage of being easily applicable to more sophisticated DFT approximations, such as meta-GGA and hybrid functionals, for which it would be hard to derive analytically the expression of the energy flux. We find in this way that a DNN model, trained on meta-GGA (SCAN) data, reduces the deviation from experiment of the predicted thermal conductivity by about 50%, leaving the question open as to whether the residual error is due to deficiencies of the functional, to a neglect of nuclear quantum effects in the atomic dynamics, or, likely, to a combination of the two.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Combination of deep neural network with attention mechanism enhances the explainability of protein contact prediction

Abstract Deep learning has emerged as a revolutionary technology for protein residue‐residue contact prediction since the 2012 CASP10 competition. Considerable advancements in the predictive power of the deep learning‐based contact predictions have been achieved since then. However, little effort has been put into interpreting the black‐box deep learning methods. Algorithms that can interpret the relationship between predicted contact maps and the internal mechanism of the deep learning architectures are needed to explore the essential components of contact inference and improve their explainability. In this study, we present an attention‐based convolutional neural network for protein contact prediction, which consists of two attention mechanism‐based modules: sequence attention and regional attention. Our benchmark results on the CASP13 free‐modeling targets demonstrate that the two attention modules added on top of existing typical deep learning models exhibit a complementary effect that contributes to prediction improvements. More importantly, the inclusion of the attention mechanism provides interpretable patterns that contain useful insights into the key fold‐determining residues in proteins. We expect the attention‐based model can provide a reliable and practically interpretable technique that helps break the current bottlenecks in explaining deep neural networks for contact prediction. The source code of our method is available at https://github.com/jianlin-cheng/InterpretContactMap .

59 BASIC BIOLOGICAL SCIENCES↗

Estimating Bidirectional Reflectance and Monitoring Stability of SNPP-VIIRS Reflective Solar Bands Using A Deep Neural Network

The NASA Clouds and the Earth's Radiant Energy System project provides the scientific community with observed top-of-atmosphere shortwave and longwave fluxes for climate monitoring and climate model validation. To provide consistent VIIRS cloud retrievals, the CERES Imager and Geostationary Calibration Group (IGCG) must understand and quantify the stability of the VIIRS instruments. To achieve this, the IGCG utilizes tropical deep convective clouds (DCCs) as invariant targets. Proper seasonal characterization of the DCC bidirectional reflectance distribution function (BRDF) is key to the success of DCC-based calibration methods, particularly for shortwave infrared (SWIR) bands. This article proposes the use of a deep neural network (DNN) to characterize VIIRS solar reflective band BRDF reflectance, with which individual channel trends are isolated by manipulating the DNN time input. Initial results show that the DNN method can extract statistically significant SNPP-VIIRS band trends, using only SNPP-VIIRS inputs, that are correlative to and match the magnitude of significant trends determined using methods that rely on an external angular distribution model. It may be possible to apply this approach to actively monitor the stability of new instruments without the need for predetermined seasonal BRDF corrections.

Benjamin Scarino↗

Integration of Ag-CBRAM crossbars and Mott ReLU neurons for efficient implementation of deep neural networks in hardware

In-memory computing with emerging non-volatile memory devices (eNVMs) has shown promising results in accelerating matrix-vector multiplications. However, activation function calculations are still being implemented with general processors or large and complex neuron peripheral circuits. Here, we present the integration of Ag-based conductive bridge random access memory (Ag-CBRAM) crossbar arrays with Mott rectified linear unit (ReLU) activation neurons for scalable, energy and area-efficient hardware (HW) implementation of deep neural networks. We develop Ag-CBRAM devices that can achieve a high ON/OFF ratio and multi-level programmability. Compact and energy-efficient Mott ReLU neuron devices implementing ReLU activation function are directly connected to the columns of Ag-CBRAM crossbars to compute the output from the weighted sum current. We implement convolution filters and activations for VGG-16 using our integrated HW and demonstrate the successful generation of feature maps for CIFAR-10 images in HW. Our approach paves a new way toward building a highly compact and energy-efficient eNVMs-based in-memory computing system.

Mott insulators↗

The deep-DRT: A deep neural network approach to deconvolve the distribution of relaxation times from multidimensional electrochemical impedance spectroscopy data

Electrochemical impedance spectroscopy (EIS) is an experimental technique ubiquitously used to study electrochemical systems. However, conventional EIS data interpretation through physical and equivalent circuit models is challenging because physical models are problem-specific, and equivalent circuits are often just lumped-element analogs lacking physical meaning. The distribution of relaxation times (DRT) has emerged as a complementary approach to resolve these issues. One drawback of conventional DRT deconvolution is that the EIS data is understood to be (only) a function of frequency (i.e. 1D data) and deconvolved accordingly. This work proposes a novel deconvolution method based on deep neural networks (DNNs), allowing the analysis of multidimensional EIS spectra to bridge data dependency on both frequencies and experimental conditions. Two particularly appealing traits of the deep-DRT method developed in this article are that neither regularization nor specific spacing on the state variables defining the experiment are required. Finally, leveraging DNN to examine complex EIS spectra and their dependence on experimental conditions, this work opens a new research direction in the area of EIS analysis and DRT deconvolution.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Thermal transport in warm dense matter revealed by refraction-enhanced x-ray radiography with a deep-neural-network analysis

Abstract Transport properties of high energy density matter affect the evolution of many systems, ranging from the geodynamo in the Earth’s core, to hydrodynamic instability growth in inertial confinement fusion capsules. Large uncertainties of these properties are present in the warm dense matter regime where both plasma models and condensed matter models become invalid. To overcome this limit, we devise an experimental platform based on x-ray differential heating and time-resolved refraction-enhanced radiography coupled to a deep neural network. We retrieve the first measurement of thermal conductivity of CH and Be in the warm dense matter regime and compare our measurement with the most commonly adopted models. The discrepancies observed are related to the estimation of a correction term from electron-electron collisions. The results necessitate improvement of transport models in the warm dense matter regime and could impact the understanding of the implosion performance for inertial confinement fusion.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

A deep neural network regressor for phase constitution estimation in the high entropy alloy system Al-Co-Cr-Fe-Mn-Nb-Ni

High Entropy Alloys (HEAs) are composed of more than one principal element and constitute a major paradigm in metals research. The HEA space is vast and an exhaustive exploration is improbable. Therefore, a thorough estimation of the phases present in the HEA is of paramount importance for alloy design. Machine Learning presents a feasible and non-expensive method for predicting possible new HEAs on-the-fly. A deep neural network (DNN) model for the elemental system of: Mn, Ni, Fe, Al, Cr, Nb, and Co is developed using a dataset generated by high-throughput computational thermodynamic calculations using Thermo-Calc. The features list used for the neural network is developed based on literature and freely available databases. A feature significance analysis matches the reported HEAs phase constitution trends on elemental properties and further expands it by providing so far-overlooked features. The final regressor has a coefficient of determination ( r 2 ) greater than 0.96 for identifying the most recurrent phases and the functionality is tested by running optimization tasks that simulate those required in alloy design. The DNN developed constitutes an example of an emulator that can be used in fast, real-time materials discovery/design tasks.

36 MATERIALS SCIENCE↗

A Deep Neural Network for Achieving Spectrally Consistent and Seamless Infrared Radiance Measurements Across Geostationary Satellite Domains

The NASA Clouds and the Earth's Radiant Energy System (CERES) project provides the scientific community with observed top-of-atmosphere (TOA) shortwave and longwave fluxes for climate monitoring and climate model validation. To achieve this goal, CERES relies on TOA broadband fluxes derived from geostationary satellite (GEO) imagery to account for the diurnal flux variations between the CERES observation intervals. Consistent global flux derivation depends on accurate and consistent cloud retrievals. Scene-dependent spectral measurement inconsistency of the instruments that make up the contiguous ring of GEO observations (GEO-Ring), as well as limb darkening effects, can cause discontinuities in derived cloud properties and radiative fluxes at the boundaries of adjacent imager domains. Although the algorithms utilize radiative transfer models to account for instrument-band-dependent atmospheric correction and viewing zenith angle (VZA) dependency, small discontinuities may persist due to uncertainties inherent to the multiple imager-specific algorithms. Furthermore, while hyperspectral-instrument-based spectral band adjustment factors may effectively account for spectrally induced bias, they are less effective at reducing variance owed to the specific composition of the viewed scene, which is challenging to robustly characterize. As such, this article highlights the use of a deep neural network (DNN) to resolve spectral-and VZA-induced biases between GEO-Ring imagers. The DNN uses available infrared (IR) channels from the GEO instruments, along with viewing and solar illumination geometry, to estimate homogenized, VIIRS-like IR radiances for use in the GEO cloud algorithm. This approach is effective at mitigating scene-dependent spectral variance and VZA dependency, resulting in consistent radiance measurements across the GEO-Ring, thereby leading toward a more seamless global cloud assessment.

deep learning↗

Theoretical Prediction of Thermal Expansion Anisotropy for Y 2 Si 2 O 7 Environmental Barrier Coatings Using a Deep Neural Network Potential and Comparison to Experiment

Environmental barrier coatings (EBCs) are an enabling technology for silicon carbide (SiC)-based ceramic matrix composites (CMCs) in extreme environments such as gas turbine engines. However, development of new coating systems is hindered by the large design space and difficulty in predicting properties for these materials. Density Functional Theory (DFT) has successfully been used to model and predict some thermodynamic and thermo-mechanical properties of high-temperature ceramics for EBCs, although these calculations are challenging due to their high computational costs. In this work, we use machine learning to train a deep neural network potential (DNP) for Y 2 Si 2 O 7 , which is then applied to calculate thermodynamic and thermo-mechanical properties at near-DFT accuracy much faster and using less computational resources than DFT. We use this DNP to predict phonon-based thermodynamic properties of Y 2 Si 2 O 7 with good agreement to DFT and experiments. We also utilize the DNP to calculate the anisotropic, lattice direction-dependent coefficients of thermal expansion (CTEs) for Y 2 Si 2 O 7 . Molecular dynamics trajectories using the DNP correctly demonstrate accurate prediction of the anisotropy of the CTE in good agreement with diffraction experiments. In the future, this DNP could be applied to accelerate additional property calculations for Y 2 Si 2 O 7 compared to DFT or experiments.

rare earth silicates↗

Frost prediction using machine learning and deep neural network models

This study describes accurate, computationally efficient models that can be implemented for practical use in predicting frost events for point-scale agricultural applications. Frost damage in agriculture is a costly burden to farmers and global food security alike. Timely prediction of frost events is important to reduce the cost of agricultural frost damage and traditional numerical weather forecasts are often inaccurate at the field-scale in complex terrain. In this paper, we developed machine learning (ML) algorithms for the prediction of such frost events near Alcalde, NM at the point-scale. ML algorithms investigated include deep neural network, convolution neural networks, and random forest models at lead-times of 6–48 h. Our results show promising accuracy (6-h prediction RMSE = 1.53–1.72°C) for use in frost and minimum temperature prediction applications. Seasonal differences in model predictions resulted in a slight negative bias during Spring and Summer months and a positive bias in Fall and Winter months. Additionally, we tested the model transferability by continuing training and testing using data from sensors at a nearby farm. We calculated the feature importance of the random forest models and were able to determine which parameters provided the models with the most useful information for predictions. We determined that soil temperature is a key parameter in longer term predictions (>24 h), while other temperature related parameters provide the majority of information for shorter term predictions. The model error compared favorable to previous ML based frost studies and outperformed the physically based High Resolution Rapid Refresh forecasting system making our ML-models attractive for deployment toward real-time monitoring of frost events and damage at commercial farming operations.

97 MATHEMATICS AND COMPUTING↗

Theoretical Prediction of Thermal Expansion Anisotropy for Y 2 Si 2 O 7 Environmental Barrier Coatings Using a Deep Neural Network Potential and Comparison to Experiment

Environmental barrier coatings (EBCs) are an enabling technology for silicon carbide (SiC)-based ceramic matrix composites (CMCs) in extreme environments such as gas turbine engines. However, the development of new coating systems is hindered by the large design space and difficulty in predicting the properties for these materials. Density Functional Theory (DFT) has successfully been used to model and predict some thermodynamic and thermo-mechanical properties of high-temperature ceramics for EBCs, although these calculations are challenging due to their high computational costs. In this work, we use machine learning to train a deep neural network potential (DNP) for Y 2 Si 2 O 7 , which is then applied to calculate the thermodynamic and thermo-mechanical properties at near-DFT accuracy much faster and using less computational resources than DFT. We use this DNP to predict the phonon-based thermodynamic properties of Y 2 Si 2 O 7 with good agreement to DFT and experiments. We also utilize the DNP to calculate the anisotropic, lattice direction-dependent coefficients of thermal expansion (CTEs) for Y 2 Si 2 O 7 . Molecular dynamics trajectories using the DNP correctly demonstrate the accurate prediction of the anisotropy of the CTE in good agreement with the diffraction experiments. In the future, this DNP could be applied to accelerate additional property calculations for Y 2 Si 2 O 7 compared to DFT or experiments.

36 MATERIALS SCIENCE↗