Structuring Scientific Innovation: A Framework for Modeling and Discovering Impactful Knowledge Combinations

The emergence of large language models offers new possibilities for structured exploration of scientific knowledge. Rather than viewing scientific discovery as isolated ideas or content, we propose a structured approach that emphasizes the role of method combinations in shaping disruptive insights. Specifically, we investigate how knowledge unit--especially those tied to methodological design--can be modeled and recombined to yield research breakthroughs. Our proposed framework addresses two key challenges. First, we introduce a contrastive learning-based mechanism to identify distinguishing features of historically disruptive method combinations within problem-driven contexts. Second, we propose a reasoning-guided Monte Carlo search algorithm that leverages the chain-of-thought capability of LLMs to identify promising knowledge recombinations for new problem statements.Empirical studies across multiple domains show that the framework is capable of modeling the structural dynamics of innovation and successfully highlights combinations with high disruptive potential. This research provides a new path for computationally guided scientific ideation grounded in structured reasoning and historical data modeling.

A practical guide to machine learning interatomic potentials -- Status and future

The rapid development and large body of literature on machine learning interatomic potentials (MLIPs) can make it difficult to know how to proceed for researchers who are not experts but wish to use these tools. The spirit of this review is to help such researchers by serving as a practical, accessible guide to the state-of-the-art in MLIPs. This review paper covers a broad range of topics related to MLIPs, including (i) central aspects of how and why MLIPs are enablers of many exciting advancements in molecular modeling, (ii) the main underpinnings of different types of MLIPs, including their basic structure and formalism, (iii) the potentially transformative impact of universal MLIPs for both organic and inorganic systems, including an overview of the most recent advances, capabilities, downsides, and potential applications of this nascent class of MLIPs, (iv) a practical guide for estimating and understanding the execution speed of MLIPs, including guidance for users based on hardware availability, type of MLIP used, and prospective simulation size and time, (v) a manual for what MLIP a user should choose for a given application by considering hardware resources, speed requirements, energy and force accuracy requirements, as well as guidance for choosing pre-trained potentials or fitting a new potential from scratch, (vi) discussion around MLIP infrastructure, including sources of training data, pre-trained potentials, and hardware resources for training, (vii) summary of some key limitations of present MLIPs and current approaches to mitigate such limitations, including methods of including long-range interactions, handling magnetic systems, and treatment of excited states, and finally (viii) we finish with some more speculative thoughts on what the future holds for the development and application of MLIPs over the next 3-10+ years.

T2ICount: Enhancing Cross-modal Understanding for Zero-Shot Counting

Zero-shot object counting aims to count instances of arbitrary object categories specified by text descriptions. Existing methods typically rely on vision-language models like CLIP, but often exhibit limited sensitivity to text prompts. We present T2ICount, a diffusion-based framework that leverages rich prior knowledge and fine-grained visual understanding from pretrained diffusion models. While one-step denoising ensures efficiency, it leads to weakened text sensitivity. To address this challenge, we propose a Hierarchical Semantic Correction Module that progressively refines text-image feature alignment, and a Representational Regional Coherence Loss that provides reliable supervision signals by leveraging the cross-attention maps extracted from the denosing U-Net. Furthermore, we observe that current benchmarks mainly focus on majority objects in images, potentially masking models' text sensitivity. To address this, we contribute a challenging re-annotated subset of FSC147 for better evaluation of text-guided counting ability. Extensive experiments demonstrate that our method achieves superior performance across different benchmarks. Code is available at https://github.com/cha15yq/T2ICount.

THESAURUS: Contrastive Graph Clustering by Swapping Fused Gromov-Wasserstein Couplings

Graph node clustering is a fundamental unsupervised task. Existing methods typically train an encoder through selfsupervised learning and then apply K-means to the encoder output. Some methods use this clustering result directly as the final assignment, while others initialize centroids based on this initial clustering and then finetune both the encoder and these learnable centroids. However, due to their reliance on K-means, these methods inherit its drawbacks when the cluster separability of encoder output is low, facing challenges from the Uniform Effect and Cluster Assimilation. We summarize three reasons for the low cluster separability in existing methods: (1) lack of contextual information prevents discrimination between similar nodes from different clusters; (2) training tasks are not sufficiently aligned with the downstream clustering task; (3) the cluster information in the graph structure is not appropriately exploited. To address these issues, we propose conTrastive grapH clustEring by SwApping fUsed gRomov-wasserstein coUplingS (THESAURUS). Our method introduces semantic prototypes to provide contextual information, and employs a cross-view assignment prediction pretext task that aligns well with the downstream clustering task. Additionally, it utilizes Gromov-Wasserstein Optimal Transport (GW-OT) along with the proposed prototype graph to thoroughly exploit cluster information in the graph structure. To adapt to diverse real-world data, THESAURUS updates the prototype graph and the prototype marginal distribution in OT by using momentum. Extensive experiments demonstrate that THESAURUS achieves higher cluster separability than the prior art, effectively mitigating the Uniform Effect and Cluster Assimilation issues

Overcoming systematic softening in universal machine learning interatomic potentials by fine-tuning

Machine learning interatomic potentials (MLIPs) have introduced a new paradigm for atomic simulations. Recent advancements have seen the emergence of universal MLIPs (uMLIPs) that are pre-trained on diverse materials datasets, providing opportunities for both ready-to-use universal force fields and robust foundations for downstream machine learning refinements. However, their performance in extrapolating to out-of-distribution complex atomic environments remains unclear. In this study, we highlight a consistent potential energy surface (PES) softening effect in three uMLIPs: M3GNet, CHGNet, and MACE-MP-0, which is characterized by energy and force under-prediction in a series of atomic-modeling benchmarks including surfaces, defects, solid-solution energetics, phonon vibration modes, ion migration barriers, and general high-energy states. We find that the PES softening behavior originates from a systematic underprediction error of the PES curvature, which derives from the biased sampling of near-equilibrium atomic arrangements in uMLIP pre-training datasets. We demonstrate that the PES softening issue can be effectively rectified by fine-tuning with a single additional data point. Our findings suggest that a considerable fraction of uMLIP errors are highly systematic, and can therefore be efficiently corrected. This result rationalizes the data-efficient fine-tuning performance boost commonly observed with foundational MLIPs. We argue for the importance of a comprehensive materials dataset with improved PES sampling for next-generation foundational MLIPs.

Application of RESNET50 Convolution Neural Network for the Extraction of Optical Parameters in Scattering Media

Estimation of the optical properties of scattering media such as tissue is important in diagnostics as well as in the development of techniques to image deeper. As light penetrates the sample scattering events occur that alter the propagation direction of the photons in a random manner leading degradation of image quality. The distribution of the scattered light does, however, give a measure of the optical properties such as the reduced scattering coefficient and the absorption coefficient. Unfortunately, inverting scattering patterns to recover the optical properties is not simple, especially in the regime where the light is partially randomized. Machine learning has been proposed by several authors as a means of recovering these properties from either the back scattered or the transmitted light. In the present paper, we train a general purpose convolutional neural network RESNET 50 with simulated data based on Monte Carlo simulations. We show that compared with previous work our approach gives comparable or better reconstruction accuracy with training on a much smaller dataset. Moreover, by training on multiple parameters such as the intensity distribution at multiple planes or the exit angle and spatial distribution one achieves improved performance compared to training on a single input such as the intensity distribution captured at the sample surface. While our approach gives good parameter reconstruction, we identify factors that limit the accuracy of the recovered properties, particularly the absorption coefficient. In the light of these limitations, we suggest how the present approach may be enhanced for even better performance.

Catalysis distillation neural network for the few shot open catalyst challenge

The integration of artificial intelligence and science has resulted in substantial progress in computational chemistry methods for the design and discovery of novel catalysts. Nonetheless, the challenges of electrocatalytic reactions and developing a large-scale language model in catalysis persist, and the recent success of ChatGPT's (Chat Generative Pre-trained Transformer) few-shot methods surpassing BERT (Bidirectional Encoder Representation from Transformers) underscores the importance of addressing limited data, expensive computations, time constraints and structure-activity relationship in research. Hence, the development of few-shot techniques for catalysis is critical and essential, regardless of present and future requirements. This paper introduces the Few-Shot Open Catalyst Challenge 2023, a competition aimed at advancing the application of machine learning technology for predicting catalytic reactions on catalytic surfaces, with a specific focus on dual-atom catalysts in hydrogen peroxide electrocatalysis. To address the challenge of limited data in catalysis, we propose a machine learning approach based on MLP-Like and a framework called Catalysis Distillation Graph Neural Network (CDGNN). Our results demonstrate that CDGNN effectively learns embeddings from catalytic structures, enabling the capture of structure-adsorption relationships. This accomplishment has resulted in the utmost advanced and efficient determination of the reaction pathway for hydrogen peroxide, surpassing the current graph neural network approach by 16.1%.. Consequently, CDGNN presents a promising approach for few-shot learning in catalysis.

CHGNet: Pretrained universal neural network potential for charge-informed atomistic modeling

The simulation of large-scale systems with complex electron interactions remains one of the greatest challenges for the atomistic modeling of materials. Although classical force-fields often fail to describe the coupling between electronic states and ionic rearrangements, the more accurate \textit{ab-initio} molecular dynamics suffers from computational complexity that prevents long-time and large-scale simulations, which are essential to study many technologically relevant phenomena, such as reactions, ion migrations, phase transformations, and degradation. In this work, we present the Crystal Hamiltonian Graph neural Network (CHGNet) as a novel machine-learning interatomic potential (MLIP), using a graph-neural-network-based force-field to model a universal potential energy surface. CHGNet is pretrained on the energies, forces, stresses, and magnetic moments from the Materials Project Trajectory Dataset, which consists of over 10 years of density functional theory static and relaxation trajectories of $\sim 1.5$ million inorganic structures. The explicit inclusion of magnetic moments enables CHGNet to learn and accurately represent the orbital occupancy of electrons, enhancing its capability to describe both atomic and electronic degrees of freedom. We demonstrate several applications of CHGNet in solid-state materials, including charge-informed molecular dynamics in Li$_x$MnO$_2$, the finite temperature phase diagram for Li$_x$FePO$_4$ and Li diffusion in garnet conductors. We critically analyze the significance of including charge information for capturing appropriate chemistry, and we provide new insights into ionic systems with additional electronic degrees of freedom that can not be observed by previous MLIPs.

TadML: A fast temporal action detection with Mechanics-MLP

Temporal Action Detection(TAD) is a crucial but challenging task in video understanding.It is aimed at detecting both the type and start-end frame for each action instance in a long, untrimmed video.Most current models adopt both RGB and Optical-Flow streams for the TAD task. Thus, original RGB frames must be converted manually into Optical-Flow frames with additional computation and time cost, which is an obstacle to achieve real-time processing. At present, many models adopt two-stage strategies, which would slow the inference speed down and complicatedly tuning on proposals generating.By comparison, we propose a one-stage anchor-free temporal localization method with RGB stream only, in which a novel Newtonian \emph{Mechanics-MLP} architecture is established. It has comparable accuracy with all existing state-of-the-art models, while surpasses the inference speed of these methods by a large margin. The typical inference speed in this paper is astounding 4.44 video per second on THUMOS14. In applications, because there is no need to convert optical flow, the inference speed will be faster.It also proves that \emph{MLP} has great potential in downstream tasks such as TAD. The source code is available at \url{https://github.com/BonedDeng/TadML}

ULSA: Unified Language of Synthesis Actions for Representation of Synthesis Protocols

Applying AI power to predict syntheses of novel materials requires high-quality, large-scale datasets. Extraction of synthesis information from scientific publications is still challenging, especially for extracting synthesis actions, because of the lack of a comprehensive labeled dataset using a solid, robust, and well-established ontology for describing synthesis procedures. In this work, we propose the first Unified Language of Synthesis Actions (ULSA) for describing ceramics synthesis procedures. We created a dataset of 3,040 synthesis procedures annotated by domain experts according to the proposed ULSA scheme. To demonstrate the capabilities of ULSA, we built a neural network-based model to map arbitrary ceramics synthesis paragraphs into ULSA and used it to construct synthesis flowcharts for synthesis procedures. Analysis for the flowcharts showed that (a) ULSA covers essential vocabulary used by researchers when describing synthesis procedures and (b) it can capture important features of synthesis protocols. This work is an important step towards creating a synthesis ontology and a solid foundation for autonomous robotic synthesis.