Materials
Mechanical Property Design of Bio-compatible Mg alloys using Machine-Learning Algorithms
Valipoorsalimi, Parham, Sari, Yuksel Asli, Pekguleryuz, Mihriban
Magnesium alloys are attractive options for temporary bio-implants because of their biocompatibility, controlled corrosion rate, and similarity to natural bone in terms of stiffness and density. Nevertheless, their low mechanical strength hinders their use as cardiovascular stents and bone substitutes. While it is possible to engineer alloys with the desired mechanical strength, optimizing the mechanical properties of biocompatible magnesium alloys using conventional experimental methods is time-consuming and expensive. Therefore, Artificial Intelligence (AI) can be leveraged to streamline the alloy design process and reduce the required time. In this study, a machine learning model was developed to predict the yield strength (YS) of biocompatible magnesium alloys with an $R^2$ accuracy of 91\%. The predictive model was then validated using the CALPHAD technique and thermodynamics calculations. Next, the predictive model was employed as the fitness function of a genetic algorithm to optimize the alloy composition for high-strength biocompatible magnesium implants. As a result, two alloys were proposed and synthesized, exhibiting YS values of 108 and 113 MPa, respectively. These values were substantially higher than those of conventional magnesium biocompatible alloys and closer to the YS and compressive strength of natural bone. Finally, the synthesized alloys were subjected to microstructure analysis and mechanical property testing to validate and evaluate the performance of the proposed AI-based alloy design approach for creating alloys with specific properties suitable for diverse applications.
RxnScribe: A Sequence Generation Model for Reaction Diagram Parsing
Qian, Yujie, Guo, Jiang, Tu, Zhengkai, Coley, Connor W., Barzilay, Regina
Reaction diagram parsing is the task of extracting reaction schemes from a diagram in the chemistry literature. The reaction diagrams can be arbitrarily complex, thus robustly parsing them into structured data is an open challenge. In this paper, we present RxnScribe, a machine learning model for parsing reaction diagrams of varying styles. We formulate this structured prediction task with a sequence generation approach, which condenses the traditional pipeline into an end-to-end model. We train RxnScribe on a dataset of 1,378 diagrams and evaluate it with cross validation, achieving an 80.0% soft match F1 score, with significant improvements over previous models. Our code and data are publicly available at https://github.com/thomas0809/RxnScribe.
Precursor recommendation for inorganic synthesis by machine learning materials similarity from scientific literature
He, Tanjin, Huo, Haoyan, Bartel, Christopher J., Wang, Zheren, Cruse, Kevin, Ceder, Gerbrand
Synthesis prediction is a key accelerator for the rapid design of advanced materials. However, determining synthesis variables such as the choice of precursor materials is challenging for inorganic materials because the sequence of reactions during heating is not well understood. In this work, we use a knowledge base of 29,900 solid-state synthesis recipes, text-mined from the scientific literature, to automatically learn which precursors to recommend for the synthesis of a novel target material. The data-driven approach learns chemical similarity of materials and refers the synthesis of a new target to precedent synthesis procedures of similar materials, mimicking human synthesis design. When proposing five precursor sets for each of 2,654 unseen test target materials, the recommendation strategy achieves a success rate of at least 82%. Our approach captures decades of heuristic synthesis data in a mathematical form, making it accessible for use in recommendation engines and autonomous laboratories.
Variational Diffusion Auto-encoder: Latent Space Extraction from Pre-trained Diffusion Models
Batzolis, Georgios, Stanczuk, Jan, Schรถnlieb, Carola-Bibiane
As a widely recognized approach to deep generative modeling, Variational Auto-Encoders (VAEs) still face challenges with the quality of generated images, often presenting noticeable blurriness. This issue stems from the unrealistic assumption that approximates the conditional data distribution, $p(\textbf{x} | \textbf{z})$, as an isotropic Gaussian. In this paper, we propose a novel solution to address these issues. We illustrate how one can extract a latent space from a pre-existing diffusion model by optimizing an encoder to maximize the marginal data log-likelihood. Furthermore, we demonstrate that a decoder can be analytically derived post encoder-training, employing the Bayes rule for scores. This leads to a VAE-esque deep latent variable model, which discards the need for Gaussian assumptions on $p(\textbf{x} | \textbf{z})$ or the training of a separate decoder network. Our method, which capitalizes on the strengths of pre-trained diffusion models and equips them with latent spaces, results in a significant enhancement to the performance of VAEs.
Multi-Fidelity Machine Learning for Excited State Energies of Molecules
Vinod, Vivin, Maity, Sayan, Zaspel, Peter, Kleinekathรถfer, Ulrich
The accurate but fast calculation of molecular excited states is still a very challenging topic. For many applications, detailed knowledge of the energy funnel in larger molecular aggregates is of key importance requiring highly accurate excited state energies. To this end, machine learning techniques can be an extremely useful tool though the cost of generating highly accurate training datasets still remains a severe challenge. To overcome this hurdle, this work proposes the use of multi-fidelity machine learning where very little training data from high accuracies is combined with cheaper and less accurate data to achieve the accuracy of the costlier level. In the present study, the approach is employed to predict the first excited state energies for three molecules of increasing size, namely, benzene, naphthalene, and anthracene. The energies are trained and tested for conformations stemming from classical molecular dynamics simulations and from real-time density functional tight-binding calculations. It can be shown that the multi-fidelity machine learning model can achieve the same accuracy as a machine learning model built only on high cost training data while having a much lower computational effort to generate the data. The numerical gain observed in these benchmark test calculations was over a factor of 30 but certainly can be much higher for high accuracy data.
Unifying Molecular and Textual Representations via Multi-task Language Modelling
Christofidellis, Dimitrios, Giannone, Giorgio, Born, Jannis, Winther, Ole, Laino, Teodoro, Manica, Matteo
The recent advances in neural language models have also been successfully applied to the field of chemistry, offering generative solutions for classical problems in molecular design and synthesis planning. These new methods have the potential to fuel a new era of data-driven automation in scientific discovery. However, specialized models are still typically required for each task, leading to the need for problem-specific fine-tuning and neglecting task interrelations. The main obstacle in this field is the lack of a unified representation between natural language and chemical representations, complicating and limiting human-machine interaction. Here, we propose the first multi-domain, multi-task language model that can solve a wide range of tasks in both the chemical and natural language domains. Our model can handle chemical and natural language concurrently, without requiring expensive pre-training on single domains or task-specific models. Interestingly, sharing weights across domains remarkably improves our model when benchmarked against state-of-the-art baselines on single-domain and cross-domain tasks. In particular, sharing information across domains and tasks gives rise to large improvements in cross-domain tasks, the magnitude of which increase with scale, as measured by more than a dozen of relevant metrics. Our work suggests that such models can robustly and efficiently accelerate discovery in physical sciences by superseding problem-specific fine-tuning and enhancing human-model interactions.
Tractable Probabilistic Graph Representation Learning with Graph-Induced Sum-Product Networks
Errica, Federico, Niepert, Mathias
We introduce Graph-Induced Sum-Product Networks (GSPNs), a new probabilistic framework for graph representation learning that can tractably answer probabilistic queries. Inspired by the computational trees induced by vertices in the context of message-passing neural networks, we build hierarchies of sum-product networks (SPNs) where the parameters of a parent SPN are learnable transformations of the a-posterior mixing probabilities of its children's sum units. Due to weight sharing and the tree-shaped computation graphs of GSPNs, we obtain the efficiency and efficacy of deep graph networks with the additional advantages of a purely probabilistic model. We show the model's competitiveness on scarce supervision scenarios, handling missing data, and graph classification in comparison to popular neural models. We complement the experiments with qualitative analyses on hyper-parameters and the model's ability to answer probabilistic queries.
Firmware implementation of a recurrent neural network for the computation of the energy deposited in the liquid argon calorimeter of the ATLAS experiment
Aad, Georges, Calvet, Thomas, Chiedde, Nemer, Faure, Robert, Fortin, Etienne Marie, Laatu, Lauri, Monnier, Emmanuel, Sur, Nairit
The ATLAS experiment measures the properties of particles that are products of proton-proton collisions at the LHC. The ATLAS detector will undergo a major upgrade before the high luminosity phase of the LHC. The ATLAS liquid argon calorimeter measures the energy of particles interacting electromagnetically in the detector. The readout electronics of this calorimeter will be replaced during the aforementioned ATLAS upgrade. The new electronic boards will be based on state-of-the-art field-programmable gate arrays (FPGA) from Intel allowing the implementation of neural networks embedded in firmware. Neural networks have been shown to outperform the current optimal filtering algorithms used to compute the energy deposited in the calorimeter. This article presents the implementation of a recurrent neural network (RNN) allowing the reconstruction of the energy deposited in the calorimeter on Stratix 10 FPGAs. The implementation in high level synthesis (HLS) language allowed fast prototyping but fell short of meeting the stringent requirements in terms of resource usage and latency. Further optimisations in Very High-Speed Integrated Circuit Hardware Description Language (VHDL) allowed fulfilment of the requirements of processing 384 channels per FPGA with a latency smaller than 125 ns.
Assessment of few-hits machine learning classification algorithms for low energy physics in liquid argon detectors
Biassoni, Matteo, Giachero, Andrea, Grossi, Michele, Guffanti, Daniele, Labranca, Danilo, Moretti, Roberto, Rossi, Marco, Terranova, Francesco, Vallecorsa, Sofia
The physics potential of massive liquid argon TPCs in the low-energy regime is still to be fully reaped because few-hits events encode information that can hardly be exploited by conventional classification algorithms. Machine learning (ML) techniques give their best in these types of classification problems. In this paper, we evaluate their performance against conventional (deterministic) algorithms. We demonstrate that both Convolutional Neural Networks (CNN) and Transformer-Encoder methods outperform deterministic algorithms in one of the most challenging classification problems of low-energy physics (single- versus double-beta events). We discuss the advantages and pitfalls of Transformer-Encoder methods versus CNN and employ these methods to optimize the detector parameters, with an emphasis on the DUNE Phase II detectors ("Module of Opportunity").
CoolPINNs: A Physics-informed Neural Network Modeling of Active Cooling in Vascular Systems
Jagtap, N. V., Mudunuru, M. K., Nakshatrala, K. B.
Emerging technologies like hypersonic aircraft, space exploration vehicles, and batteries avail fluid circulation in embedded microvasculatures for efficient thermal regulation. Modeling is vital during these engineered systems' design and operational phases. However, many challenges exist in developing a modeling framework. What is lacking is an accurate framework that (i) captures sharp jumps in the thermal flux across complex vasculature layouts, (ii) deals with oblique derivatives (involving tangential and normal components), (iii) handles nonlinearity because of radiative heat transfer, (iv) provides a high-speed forecast for real-time monitoring, and (v) facilitates robust inverse modeling. This paper addresses these challenges by availing the power of physics-informed neural networks (PINNs). We develop a fast, reliable, and accurate Scientific Machine Learning (SciML) framework for vascular-based thermal regulation -- called CoolPINNs: a PINNs-based modeling framework for active cooling. The proposed mesh-less framework elegantly overcomes all the mentioned challenges. The significance of the reported research is multi-fold. First, the framework is valuable for real-time monitoring of thermal regulatory systems because of rapid forecasting. Second, researchers can address complex thermoregulation designs inasmuch as the approach is mesh-less. Finally, the framework facilitates systematic parameter identification and inverse modeling studies, perhaps the current framework's most significant utility.