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Anyi Li

Publications and source records attributed to Anyi Li.

At least 19 recordsLinked to original sources

Reducing Symmetry Increase in Equivariant Neural Networks

Equivariant Neural Networks (ENNs) have empowered numerous applications in scientific fields. Despite their remarkable capacity for representing geometric structures, ENNs suffer from degraded expressivity when processing symmetric inputs: the output representations are invariant to transformations that extend beyond the input's symmetries. The mathematical essence of this phenomenon is that a symmetric input, after being processed by an equivariant map, experiences an increase in symmetry. While prior research has documented symmetry increase in specific cases, a rigorous understanding of its underlying causes and general reduction strategies remains lacking. In this paper, we provide a detailed and in-depth characterization of symmetry increase together with a principled framework for its reduction: (i) For any given feature space and input symmetry group, we prove that the increased symmetry admits an infimum determined by the structure of the feature space; (ii) Building on this foundation, we develop a computable algorithm to derive this infimum, and propose practical guidelines for feature design to prevent harmful symmetry increases. (iii) Under standard regularity assumptions, we demonstrate that for most equivariant maps, our guidelines effectively reduce symmetry increase. To complement our theoretical findings, we provide visualizations and experiments on both synthetic datasets and the real-world QM9 dataset. The results validate our theoretical predictions.

cs.LG

Agentic Fusion of Large Atomic and Language Models to Accelerate Superconductor Discovery

Artificial intelligence has accelerated materials discovery through high-throughput prediction and generation, yet the decision problem remains a formidable bottleneck. While current AI systems readily propose millions of candidates, navigating the decision regarding a viable experimental target requires resolving multi-dimensional judgments across atomic-scale numerical computation and high-level semantic reasoning. Here we present ElementsClaw, an agentic framework for materials discovery that orchestrates a suite of Large Atomic Model (LAM) tools finetuned from our proposed 1-billion-parameter model Elements for numerical computation, while leveraging Large Language Models (LLMs) for semantic reasoning. Applied to superconductors, ElementsClaw rediscovers 66 experimentally verified superconductors that are absent from the standard SuperCon3D database. Scaling to 2.4 million equilibrium crystals, ElementsClaw identifies 68,000 high-confidence candidates in just 28 GPU hours (https://developer.damo-academy.com/material), expanding known superconducting space by orders of magnitude compared to datasets curated over decades. Guided by the agent's reasoning, we experimentally synthesize and verify four novel superconductors: the motif-guided Zr$_3$ScRe$_8$ ($T_c$ = 6.5 K), the de novo generated HfZrRe$_4$ ($T_c$ = 5.9 K), the structurally reinterpreted Zr$_4$VRe$_7$ ($T_c$ = 3.5 K), and the database-latent Hf$_{21}$Re$_{25}$ ($T_c$ = 2.5 K). Together, our results establish a knowledge integrated, autonomously orchestrated, and experimentally grounded paradigm for materials discovery.

cs.LG

The Evolving Ethics of Medical Data Stewardship

Healthcare stands at a critical crossroads. Artificial Intelligence and modern computing are unlocking opportunities, yet their value lies in the data that fuels them. The value of healthcare data is no longer limited to individual patients. However, data stewardship and governance has not kept pace, and privacy-centric policies are hindering both innovation and patient protections. As healthcare moves toward a data-driven future, we must define reformed data stewardship that prioritizes patients' interests by proactively managing modern risks and opportunities while addressing key challenges in cost, efficacy, and accessibility. Current healthcare data policies are rooted in 20th-century legislation shaped by outdated understandings of data-prioritizing perceived privacy over innovation and inclusion. While other industries thrive in a data-driven era, the evolution of medicine remains constrained by regulations that impose social rather than scientific boundaries. Large-scale aggregation is happening, but within opaque, closed systems. As we continue to uphold foundational ethical principles - autonomy, beneficence, nonmaleficence, and justice - there is a growing imperative to acknowledge they exist in evolving technological, social, and cultural realities. Ethical principles should facilitate, rather than obstruct, dialogue on adapting to meet opportunities and address constraints in medical practice and healthcare delivery. The new ethics of data stewardship places patients first by defining governance that adapts to changing landscapes. It also rejects the legacy of treating perceived privacy as an unquestionable, guiding principle. By proactively redefining data stewardship norms, we can drive an era of medicine that promotes innovation, protects patients, and advances equity - ensuring future generations advance medical discovery and care.

cs.CY

AI-assisted workflow enables rapid, high-fidelity breast cancer clinical trial eligibility prescreening

Clinical trials play an important role in cancer care and research, yet participation rates remain low. We developed MSK-MATCH (Memorial Sloan Kettering Multi-Agent Trial Coordination Hub), an AI system for automated eligibility screening from clinical text. MSK-MATCH integrates a large language model with a curated oncology trial knowledge base and retrieval-augmented architecture providing explanations for all AI predictions grounded in source text. In a retrospective dataset of 88,518 clinical documents from 731 patients across six breast cancer trials, MSK-MATCH automatically resolved 61.9% of cases and triaged 38.1% for human review. This AI-assisted workflow achieved 98.6% accuracy, 98.4% sensitivity, and 98.7% specificity for patient-level eligibility classification, matching or exceeding performance of the human-only and AI-only comparisons. For the triaged cases requiring manual review, prepopulating eligibility screens with AI-generated explanations reduced screening time from 20 minutes to 43 seconds at an average cost of $0.96 per patient-trial pair.

cs.LG

Geometric Mixture Models for Electrolyte Conductivity Prediction

Accurate prediction of ionic conductivity in electrolyte systems is crucial for advancing numerous scientific and technological applications. While significant progress has been made, current research faces two fundamental challenges: (1) the lack of high-quality standardized benchmarks, and (2) inadequate modeling of geometric structure and intermolecular interactions in mixture systems. To address these limitations, we first reorganize and enhance the CALiSol and DiffMix electrolyte datasets by incorporating geometric graph representations of molecules. We then propose GeoMix, a novel geometry-aware framework that preserves Set-SE(3) equivariance-an essential but challenging property for mixture systems. At the heart of GeoMix lies the Geometric Interaction Network (GIN), an equivariant module specifically designed for intermolecular geometric message passing. Comprehensive experiments demonstrate that GeoMix consistently outperforms diverse baselines (including MLPs, GNNs, and geometric GNNs) across both datasets, validating the importance of cross-molecular geometric interactions and equivariant message passing for accurate property prediction. This work not only establishes new benchmarks for electrolyte research but also provides a general geometric learning framework that advances modeling of mixture systems in energy materials, pharmaceutical development, and beyond.

cs.LG

Universally Invariant Learning in Equivariant GNNs

Equivariant Graph Neural Networks (GNNs) have demonstrated significant success across various applications. To achieve completeness -- that is, the universal approximation property over the space of equivariant functions -- the network must effectively capture the intricate multi-body interactions among different nodes. Prior methods attain this via deeper architectures, augmented body orders, or increased degrees of steerable features, often at high computational cost and without polynomial-time solutions. In this work, we present a theoretically grounded framework for constructing complete equivariant GNNs that is both efficient and practical. We prove that a complete equivariant GNN can be achieved through two key components: 1) a complete scalar function, referred to as the canonical form of the geometric graph; and 2) a full-rank steerable basis set. Leveraging this finding, we propose an efficient algorithm for constructing complete equivariant GNNs based on two common models: EGNN and TFN. Empirical results demonstrate that our model demonstrates superior completeness and excellent performance with only a few layers, thereby significantly reducing computational overhead while maintaining strong practical efficacy.

cs.LG

Are High-Degree Representations Really Unnecessary in Equivariant Graph Neural Networks?

Equivariant Graph Neural Networks (GNNs) that incorporate E(3) symmetry have achieved significant success in various scientific applications. As one of the most successful models, EGNN leverages a simple scalarization technique to perform equivariant message passing over only Cartesian vectors (i.e., 1st-degree steerable vectors), enjoying greater efficiency and efficacy compared to equivariant GNNs using higher-degree steerable vectors. This success suggests that higher-degree representations might be unnecessary. In this paper, we disprove this hypothesis by exploring the expressivity of equivariant GNNs on symmetric structures, including $k$-fold rotations and regular polyhedra. We theoretically demonstrate that equivariant GNNs will always degenerate to a zero function if the degree of the output representations is fixed to 1 or other specific values. Based on this theoretical insight, we propose HEGNN, a high-degree version of EGNN to increase the expressivity by incorporating high-degree steerable vectors while maintaining EGNN's efficiency through the scalarization trick. Our extensive experiments demonstrate that HEGNN not only aligns with our theoretical analyses on toy datasets consisting of symmetric structures, but also shows substantial improvements on more complicated datasets such as $N$-body and MD17. Our theoretical findings and empirical results potentially open up new possibilities for the research of equivariant GNNs.

cs.LG

PET Quantification of Ultra Low Activity via Inhomogeneous Poisson Process Parameters Estimation Directly from Listmode Data

Metabolic imaging with PET/CT using $^{18}$F-Fludeoxyglucose ($^{18}$F-FDG) as well as other imaging biomarkers has achieved wide acceptance in oncology, cardiology and neurology not only because of the unique metabolic information generated by this modality, but also because of its ability to quantify biological processes. However, PET quantification is affected by many technical and physiologic factors, and then recognized as an important problem for diagnosis, determination of prognosis, and response monitoring in oncology. In this work, we investigated the effect of reduced PET emission count statistics on the accuracy and precision of tracer quantification, and proposed Inhomogeneous Poisson Process Parameter Estimation (I3PE) method. In I3PE method, we modelled the coincidence event as Inhomogeneous Poisson Process, and estimate its parameter directly from the streaming listmode data. To evaluate the effectiveness, a experiment using $^{18}$F-FDG was implemented on LIGHTNING. The results not only demonstrate I3PE method, but also evaluated the minimal detectable activity of the using PET machine. According $0.3\%$ mean error rate criterion, LIGHTNING can detect several nano-Curie, cooperated with I3PE method.

physics.med-ph

Roper State from Overlap Fermions

The Roper state is extracted with valence overlap fermions on a $2+1$-flavor domain-wall fermion lattice (spacing $a = 0.114$ fm and $m_π = 330$ MeV) using both the Sequential Empirical Bayes (SEB) method and the variational method. The results are consistent, provided that a large smearing-size interpolation operator is included in the variational calculation to have better overlap with the lowest radial excitation. Similar calculations carried out for an anisotropic clover lattice with similar parameters find the Roper $\approx 280$ MeV higher than that of the overlap fermion. The fact that the prediction of the Roper state by overlap fermions is consistently lower than those of clover fermions, chirally improved fermions, and twisted-mass fermions over a wide range of pion masses has been dubbed a "Roper puzzle." To understand the origin of this difference, we study the hairpin $Z$-diagram in the isovector scalar meson ($a_0$) correlator in the quenched approximation. Comparing the $a_0$ correlators for clover and overlap fermions, at a pion mass of 290 MeV, we find that the spectral weight of the ghost state with clover fermions is smaller than that of the overlap at $a = 0.12$ fm and $0.09$ fm, whereas the whole $a_0$ correlators of clover and overlap at $a = 0.06$ fm coincide within errors. This suggests that chiral symmetry is restored for clover at $a \le 0.06$ fm and that the Roper should come down at and below this $a$. We conclude that this work supports a resolution of the "Roper puzzle" due to $Z$-graph type chiral dynamics. This entails coupling to higher components in the Fock space (e.g. $Nπ$, $Nππ$ states) to induce the effective flavor-spin interaction between quarks as prescribed in the chiral quark model, resulting in the parity-reversal pattern as observed in the experimental excited states of $N, Δ$ and $Λ$.

hep-ph

A Fast algorithm of PET System Response Matrix based on Straight Line Truncation

In the calculation of Positron Emission Tomography (PET) image reconstruction, System Response Matrix (SRM) characterizes the numerical relationship between measurement space and image space. Due to a significant amount of calculation and low efficiency of the current SRM algorithm, the application of iterative reconstruction in the medical and industrial fields is limited. The time and space of computing SRM are the most important factors that researchers are concerned about. In this paper, the Straight Line Truncation (hereinafter referred to as SLT) method is applied to calculate the SRM. We verified that it improves the speed of calculating the SRM and reduces its spatial complexity. The experimental results show that the forward projection speed of SLT algorithm is six times more than that of the traditional Ray-Tracing algorithm. Besides, the forward projection speed of the small angle of SLT is about 23 times that of the traditional Ray-Tracing algorithm, and the storage space of SLT is about one sixty-fourth of the storage space of traditional Ray-Tracing algorithm.

physics.med-ph

A Novel Visible Light Communication System Prototype Based on SiPM Receiver

Si-Photomultiplier (SiPM) has several attracting features, which can be helpful in the communication field, such as high photon detection efficiency, fast transient response, excellent timing resolution, and wide spectral range. In this paper, we compare SiPM with photodiode (PD), Avalanche photodiodes (APD), and Photomultiplier tube (PMT) in terms of the transformation related performance, and then implement Si-Photomultiplier (SiPM) based visible light communication (VLC) system driven with visible light light-emitting diode (LED). The system throughout ability, transmission rate, data reconstruction, and required AD sample rate are evaluated. The encouraging results suggest that the SiPM receiver has great application potentials, such as optical wireless communication systems and light fidelity, in which a wide bandwidth of the sensor response is important to enhance the transfer rate.

physics.ins-det

Charm and strange quark masses and $f_{D_s}$ from overlap fermions

We use overlap fermions as valence quarks to calculate meson masses in a wide quark mass range on the $2+1$-flavor domain-wall fermion gauge configurations generated by the RBC and UKQCD Collaborations. The well-defined quark masses in the overlap fermion formalism and the clear valence quark mass dependence of meson masses observed from the calculation facilitate a direct derivation of physical current quark masses through a global fit to the lattice data, which incorporates $O(a^2)$ and $O(m_c^4a^4)$ corrections, chiral extrapolation, and quark mass interpolation. Using the physical masses of $D_s$, $D_s^*$ and $J/ψ$ as inputs, Sommer's scale parameter $r_0$ and the masses of charm quark and strange quark in the $\overline{\rm MS}$ scheme are determined to be $r_0=0.465(4)(9)$ fm, $m_c^{\overline{\rm MS}}(2\,{\rm GeV})=1.118(6)(24)$ GeV (or $m_c^{\overline{\rm MS}}(m_c)=1.304(5)(20)$ GeV), and $m_s^{\overline{\rm MS}}(2\,{\rm GeV})=0.101(3)(6)\,{\rm GeV}$, respectively. Furthermore, we observe that the mass difference of the vector meson and the pseudoscalar meson with the same valence quark content is proportional to the reciprocal of the square root of the valence quark masses. The hyperfine splitting of charmonium, $M_{J/ψ}-M_{η_c}$, is determined to be 119(2)(7) MeV, which is in good agreement with the experimental value. We also predict the decay constant of $D_s$ to be $f_{D_s}=254(2)(4)$ MeV. The masses of charmonium $P$-wave states $χ_{c0}, χ_{c1}$ and $h_c$ are also in good agreement with experiments.

hep-lat

Non-perturbative renormalization of overlap quark bilinears on 2+1-flavor domain wall fermion configurations

We present renormalization constants of overlap quark bilinear operators on 2+1-flavor domain wall fermion configurations. This setup is being used by the chiQCD collaboration in calculations of physical quantities such as strangeness in the nucleon and the strange and charm quark masses. The scale independent renormalization constant for the axial vector current is computed using the Ward Identity. The renormalization constants for scalar, pseudoscalar and vector current are calculated in the RI-MOM scheme. Results in the MS-bar scheme are also given. The step scaling function of quark masses in the RI-MOM scheme is computed as well. The analysis uses, in total, six different ensembles of three sea quarks each on two lattices with sizes 24^3x64 and 32^3x64 at spacings a=(1.73 GeV)^{-1} and (2.28 GeV)^{-1}, respectively.

hep-lat

The Roper Puzzle

We carried out a calculation of the Roper state with the Sequential Empirical Bayesian (SEB) method with overlap valence fermion on 2+1-flavor domain-wall fermion configurations on the 24^3 x 64 lattice with a^{-1} = 1.73 GeV. The light sea quark mass corresponds to a pion mass of 330 MeV. The mass of the Roper, chirally extrapolated to the physical pion mass, is 1404(112) MeV which is consistent with the experimental value at 1440 MeV. When compared to the Roper state calculation with variational method for Clover and twisted mass fermions, it is found that the Roper states from SEB with overlap fermion are systematically lower by 400 - 800 MeV for all the quark masses ranging from light to the strange mass region. We study the origin of the difference by exploring the size of the interpolation field in relation to the radial wavefunction of the Roper and also the dynamical influence of the higher Fock space.

hep-ph

QCD at imaginary chemical potential with Wilson fermions

We investigate the phase diagram in the temperature, imaginary chemical potential plane for QCD with three degenerate quark flavors using Wilson type fermions. While more expensive than the staggered fermions used in past studies in this area, Wilson fermions can be used safely to simulate systems with three quark flavors. In this talk, we focus on the (pseudo)critical line that extends from $μ=0$ in the imaginary chemical potential plane, trace it to the Roberge-Weiss line, and determine its location relative to the Roberge-Weiss transition point. In order to smoothly follow the (pseudo)critical line in this plane we perform a multi-histogram reweighting in both temperature and chemical potential. To perform reweighting in the chemical potential we use the compression formula to compute the determinants exactly. Our results are compatible with the standard scenario.

hep-lat

Non-perturbative renormalization of overlap quark bilinears on domain wall fermion configurations

We present renormalization constants of overlap quark bilinear operators on 2+1-flavor domain wall fermion configurations. Both overlap and domain wall fermions have chiral symmetry on the lattice. The scale independent renormalization constant for the local axial vector current is computed using a Ward Identity. The renormalization constants for the scalar, pseudoscalar and vector current are calculated in the RI-MOM scheme. Results in the MS-bar scheme are obtained by using perturbative conversion ratios. The analysis uses in total six ensembles with lattice sizes 24^3x64 and 32^3x64.

hep-lat

Quantum critical behavior in three dimensional lattice Gross-Neveu models

We study quantum critical behavior in three dimensional lattice Gross-Neveu models containing two massless Dirac fermions. We focus on two models with SU(2) flavor symmetry and either a $Z_2$ or a U(1) chiral symmetry. Both models could not be studied earlier due to sign problems. We use the fermion bag approach which is free of sign problems and compute critical exponents at the phase transitions. We estimate $ν= 0.83(1)$, $η= 0.62(1)$, $η_ψ= 0.38(1)$ in the $Z_2$ and $ν= 0.849(8)$, $η= 0.633(8)$, $η_ψ= 0.373(3)$ in the U(1) model.

hep-lat

Fermion bag solutions to some sign problems in four-fermion field theories

Lattice four-fermion models containing $N$ flavors of staggered fermions, that are invariant under $Z_2$ and U(1) chiral symmetries, are known to suffer from sign problems when formulated using the auxiliary field approach. Although these problems have been ignored in previous studies, they can be severe. In this talk, we show that the sign problems disappear when the models are formulated in the fermion bag approach, allowing us to solve them rigorously for the first time.

hep-lat