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Li Zeng

Publications and source records attributed to Li Zeng.

At least 55 records · Page 3Linked to original sources

High-Throughput LLM inference on Heterogeneous Clusters

Nowadays, many companies possess various types of AI accelerators, forming heterogeneous clusters. Efficiently leveraging these clusters for high-throughput large language model (LLM) inference services can significantly reduce costs and expedite task processing. However, LLM inference on heterogeneous clusters presents two main challenges. Firstly, different deployment configurations can result in vastly different performance. The number of possible configurations is large, and evaluating the effectiveness of a specific setup is complex. Thus, finding an optimal configuration is not an easy task. Secondly, LLM inference instances within a heterogeneous cluster possess varying processing capacities, leading to different processing speeds for handling inference requests. Evaluating these capacities and designing a request scheduling algorithm that fully maximizes the potential of each instance is challenging. In this paper, we propose a high-throughput inference service system on heterogeneous clusters. First, the deployment configuration is optimized by modeling the resource amount and expected throughput and using the exhaustive search method. Second, a novel mechanism is proposed to schedule requests among instances, which fully considers the different processing capabilities of various instances. Extensive experiments show that the proposed scheduler improves throughput by 122.5% and 33.6% on two heterogeneous clusters, respectively.

cs.DC↗

Stability Enhancement of a Self-Amplified Spontaneous Emission Free-electron Laser with Bunching Containment

The self-amplified spontaneous emission (SASE) mechanism, the fundamental operating principle of numerous free-electron laser (FEL) facilities, is driven by electron beam shot noise and leads to significant fluctuations in the output pulse energy. This study presents a robust method for improving pulse energy stability by incorporating a dispersion element that introduces longitudinal dispersion into the electron beam during the exponential growth phase of the SASE process. At this phase, the density modulation of the electron beam, characterized by the bunching factor, undergoes large fluctuations, resulting in substantial variations in the emitted radiation power. The introduction of longitudinal dispersion allows for controlled manipulation of the bunching distribution, suppressing fluctuations and enhancing pulse energy stability. The stabilization mechanism is explained in this paper, and its impact on the radiation properties is analyzed for both the standard SASE scheme and advanced lasing setups, such as a two-stage lasing process for two-color pulse generation, with the initial stage operating in SASE mode.

physics.acc-ph↗

EFSA: Towards Event-Level Financial Sentiment Analysis

In this paper, we extend financial sentiment analysis~(FSA) to event-level since events usually serve as the subject of the sentiment in financial text. Though extracting events from the financial text may be conducive to accurate sentiment predictions, it has specialized challenges due to the lengthy and discontinuity of events in a financial text. To this end, we reconceptualize the event extraction as a classification task by designing a categorization comprising coarse-grained and fine-grained event categories. Under this setting, we formulate the \textbf{E}vent-Level \textbf{F}inancial \textbf{S}entiment \textbf{A}nalysis~(\textbf{EFSA} for short) task that outputs quintuples consisting of (company, industry, coarse-grained event, fine-grained event, sentiment) from financial text. A large-scale Chinese dataset containing $12,160$ news articles and $13,725$ quintuples is publicized as a brand new testbed for our task. A four-hop Chain-of-Thought LLM-based approach is devised for this task. Systematically investigations are conducted on our dataset, and the empirical results demonstrate the benchmarking scores of existing methods and our proposed method can reach the current state-of-the-art. Our dataset and framework implementation are available at https://anonymous.4open.science/r/EFSA-645E

cs.CL↗

The Performance of Seeded Free-Electron Lasers Through Dispersion Strength Tuning

Over the last decade, external seeded free electron lasers (FELs) have achieved significant advancements across various disciplines, progressively establishing themselves as indispensable tools in fields ranging from fundamental science to industrial applications. The performance of seeded FELs is critically dependent on the quality of the frequency up-conversion process. Optimized conditions for seeded FELs are typically considered as the maximization of the bunching factor. This paper discusses alternative perspectives on the optimization criteria for seeded FELs by analyzing the impact of dispersion strength on their overall performance. We investigate the relationship among the required dispersion strength for achieving the maximum bunching factor, maximum pulse energy, and optimal energy stability through theoretical analysis, simulation calculations, and experimental explorations. Additionally, the direct observation of pulse splitting emphasizes the consideration of trade-off between pulse energy and temporal coherence in seeded FELs. These results provide valuable insights and practical guidance for controlling the pulse characteristics of seeded FELs, contributing to the tuning and optimization of FEL facilities.

physics.acc-ph↗

FAME: Towards Factual Multi-Task Model Editing

Large language models (LLMs) embed extensive knowledge and utilize it to perform exceptionally well across various tasks. Nevertheless, outdated knowledge or factual errors within LLMs can lead to misleading or incorrect responses, causing significant issues in practical applications. To rectify the fatal flaw without the necessity for costly model retraining, various model editing approaches have been proposed to correct inaccurate knowledge within LLMs in a cost-efficient way. To evaluate these model editing methods, previous work introduced a series of datasets. However, most of the previous datasets only contain fabricated data in a single format, which diverges from real-world model editing scenarios, raising doubts about their usability in practice. To facilitate the application of model editing in real-world scenarios, we propose the challenge of practicality. To resolve such challenges and effectively enhance the capabilities of LLMs, we present FAME, an factual, comprehensive, and multi-task dataset, which is designed to enhance the practicality of model editing. We then propose SKEME, a model editing method that uses a novel caching mechanism to ensure synchronization with the real world. The experiments demonstrate that SKEME performs excellently across various tasks and scenarios, confirming its practicality.

cs.CL↗

Synthesis of Electron Microbunching Rotation for Generating Isolated Attosecond Soft X-ray Free-electron Laser Pulses

Attosecond x-ray pulses play a crucial role in the study of ultrafast phenomena occurring within inner and valence electrons. Especially isolated attosecond pulses with high photon energy and high peak power are of great significance in single-shot imaging in the soft x-ray region, life sciences, and attosecond pump-probe experiments. In modern accelerators, laser manipulation of electrons can be used to tailor the ultrafast properties of free-electron laser (FEL) pulses. In this paper, we propose a novel laser manipulation technique that makes use of two laser beams with mutual delays and tilted wavefronts to synthesize microbunching rotation on the scale of infrared laser wavelengths within the electron bunch for generating isolated attosecond soft x-ray pulses. This microbunching rotation ultimately leads to an enhanced current contrast ratio between the main peak and the surrounding satellite peaks within the bunch. By properly accounting for the longitudinal space charge fields within the FEL undulator, a tapered undulator can further suppress the side peaks in the radiation pulse and enable the selection of an isolated, hundred-attosecond, GW-level soft x-ray pulse.

physics.acc-ph↗

MaskMol: Knowledge-guided Molecular Image Pre-Training Framework for Activity Cliffs

Activity cliffs, which refer to pairs of molecules that are structurally similar but show significant differences in their potency, can lead to model representation collapse and make the model challenging to distinguish them. Our research indicates that as molecular similarity increases, graph-based methods struggle to capture these nuances, whereas image-based approaches effectively retain the distinctions. Thus, we developed MaskMol, a knowledge-guided molecular image self-supervised learning framework. MaskMol accurately learns the representation of molecular images by considering multiple levels of molecular knowledge, such as atoms, bonds, and substructures. By utilizing pixel masking tasks, MaskMol extracts fine-grained information from molecular images, overcoming the limitations of existing deep learning models in identifying subtle structural changes. Experimental results demonstrate MaskMol's high accuracy and transferability in activity cliff estimation and compound potency prediction across 20 different macromolecular targets, outperforming 25 state-of-the-art deep learning and machine learning approaches. Visualization analyses reveal MaskMol's high biological interpretability in identifying activity cliff-relevant molecular substructures. Notably, through MaskMol, we identified candidate EP4 inhibitors that could be used to treat tumors. This study not only raises awareness about activity cliffs but also introduces a novel method for molecular image representation learning and virtual screening, advancing drug discovery and providing new insights into structure-activity relationships (SAR).

cs.CV↗

Causal estimands and identification of time-varying effects in non-stationary time series from N-of-1 mobile device data

Mobile technology (mobile phones and wearable devices) generates continuous data streams encompassing outcomes, exposures and covariates, presented as intensive longitudinal or multivariate time series data. The high frequency of measurements enables granular and dynamic evaluation of treatment effect, revealing their persistence and accumulation over time. Existing methods predominantly focus on the contemporaneous effect, temporal-average, or population-average effects, assuming stationarity or invariance of treatment effects over time, which are inadequate both conceptually and statistically to capture dynamic treatment effects in personalized mobile health data. We here propose new causal estimands for multivariate time series in N-of-1 studies. These estimands summarize how time-varying exposures impact outcomes in both short- and long-term. We propose identifiability assumptions and a g-formula estimator that accounts for exposure-outcome and outcome-covariate feedback. The g-formula employs a state space model framework innovatively to accommodate time-varying behavior of treatment effects in non-stationary time series. We apply the proposed method to a multi-year smartphone observational study of bipolar patients and estimate the dynamic effect of phone-based communication on mood of patients with bipolar disorder in an N-of-1 setting. Our approach reveals substantial heterogeneity in treatment effects over time and across individuals. A simulation-based strategy is also proposed for the development of a short-term, dynamic, and personalized treatment recommendation based on patient's past information, in combination with a novel positivity diagnostics plot, validating proper causal inference in time series data.

stat.ME↗

LocMoE: A Low-Overhead MoE for Large Language Model Training

The Mixtures-of-Experts (MoE) model is a widespread distributed and integrated learning method for large language models (LLM), which is favored due to its ability to sparsify and expand models efficiently. However, the performance of MoE is limited by load imbalance and high latency of All-to-All communication, along with relatively redundant computation owing to large expert capacity. Load imbalance may result from existing routing policies that consistently tend to select certain experts. The frequent inter-node communication in the All-to-All procedure also significantly prolongs the training time. To alleviate the above performance problems, we propose a novel routing strategy that combines load balance and locality by converting partial inter-node communication to that of intra-node. Notably, we elucidate that there is a minimum threshold for expert capacity, calculated through the maximal angular deviation between the gating weights of the experts and the assigned tokens. We port these modifications on the PanGu-Sigma model based on the MindSpore framework with multi-level routing and conduct experiments on Ascend clusters. The experiment results demonstrate that the proposed LocMoE reduces training time per epoch by 12.68% to 22.24% compared to classical routers, such as hash router and switch router, without impacting the model accuracy.

cs.LG↗

Ultra-high harmonic conversion of a seeded free-electron laser via harmonic optical klystron

External seeded free-electron lasers (FELs) are compelling tools for generating fully coherent EUV and soft X-ray radiations. Echo-enabled harmonic generation (EEHG), the most typical representative of external seeded FELs, has witnessed a remarkable growth of fully coherent FELs in the last decade, continuously evolving towards higher harmonic conversions and shorter wavelengths. Ultra-high harmonic generation is imperative in the field of FELs. This paper presents a novel method for generating FEL radiation with ultra-high harmonic conversion, utilizing harmonic optical klystron in combination with EEHG. This method can effectively increase the harmonic conversion order to about 90. Theoretical analysis and numerical simulations show that intense and almost fully coherent FEL pulses can be generated with a wavelength of 3 nm. At the same time, the seed laser intensity required by this scheme is lower compared to nominal EEHG, thus facilitating the generation of high-repetition-rate seeded FELs.

physics.acc-ph↗

Transform then Explore: a Simple and Effective Technique for Exploratory Combinatorial Optimization with Reinforcement Learning

Many complex problems encountered in both production and daily life can be conceptualized as combinatorial optimization problems (COPs) over graphs. Recent years, reinforcement learning (RL) based models have emerged as a promising direction, which treat the COPs solving as a heuristic learning problem. However, current finite-horizon-MDP based RL models have inherent limitations. They are not allowed to explore adquately for improving solutions at test time, which may be necessary given the complexity of NP-hard optimization tasks. Some recent attempts solve this issue by focusing on reward design and state feature engineering, which are tedious and ad-hoc. In this work, we instead propose a much simpler but more effective technique, named gauge transformation (GT). The technique is originated from physics, but is very effective in enabling RL agents to explore to continuously improve the solutions during test. Morever, GT is very simple, which can be implemented with less than 10 lines of Python codes, and can be applied to a vast majority of RL models. Experimentally, we show that traditional RL models with GT technique produce the state-of-the-art performances on the MaxCut problem. Furthermore, since GT is independent of any RL models, it can be seamlessly integrated into various RL frameworks, paving the way of these models for more effective explorations in the solving of general COPs.

cs.LG↗

Satellite Federated Edge Learning: Architecture Design and Convergence Analysis

The proliferation of low-earth-orbit (LEO) satellite networks leads to the generation of vast volumes of remote sensing data which is traditionally transferred to the ground server for centralized processing, raising privacy and bandwidth concerns. Federated edge learning (FEEL), as a distributed machine learning approach, has the potential to address these challenges by sharing only model parameters instead of raw data. Although promising, the dynamics of LEO networks, characterized by the high mobility of satellites and short ground-to-satellite link (GSL) duration, pose unique challenges for FEEL. Notably, frequent model transmission between the satellites and ground incurs prolonged waiting time and large transmission latency. This paper introduces a novel FEEL algorithm, named FEDMEGA, tailored to LEO mega-constellation networks. By integrating inter-satellite links (ISL) for intra-orbit model aggregation, the proposed algorithm significantly reduces the usage of low data rate and intermittent GSL. Our proposed method includes a ring all-reduce based intra-orbit aggregation mechanism, coupled with a network flow-based transmission scheme for global model aggregation, which enhances transmission efficiency. Theoretical convergence analysis is provided to characterize the algorithm performance. Extensive simulations show that our FEDMEGA algorithm outperforms existing satellite FEEL algorithms, exhibiting an approximate 30% improvement in convergence rate.

eess.SP↗

Cosmic Hydrogen and Ice Loss Lines

We explain the overall equilibrium-temperature-dependent trend in the exoplanet mass-radius diagram, using the escape mechanisms of hydrogen and relevant volatiles, and the chemical equilibrium calculation of molecular hydrogen (H$_2$) break-up into atomic hydrogen (H). We identify two Cosmic Hydrogen and Ice Loss Lines (CHILLs) in the mass-radius diagram. Gas disks are well known to disperse in ten million years. However, gas-rich planets may lose some or almost all gas on a much longer timescale. We thus hypothesize that most planets that are born out of a hydrogen-gas-dominated nebular disk begin by possessing a primordial H$_2$-envelope. This envelope is gradually lost due to escape processes caused by host-stellar radiation.

astro-ph.EP↗

WindGP: Efficient Graph Partitioning on Heterogenous Machines

Graph Partitioning is widely used in many real-world applications such as fraud detection and social network analysis, in order to enable the distributed graph computing on large graphs. However, existing works fail to balance the computation cost and communication cost on machines with different power (including computing capability, network bandwidth and memory size), as they only consider replication factor and neglect the difference of machines in realistic data centers. In this paper, we propose a general graph partitioning algorithm WindGP, which can support fast and high-quality edge partitioning on heterogeneous machines. WindGP designs novel preprocessing techniques to simplify the metric and balance the computation cost according to the characteristics of graphs and machines. Also, best-first search is proposed instead of BFS and DFS, in order to generate clusters with high cohesion. Furthermore, WindGP adaptively tunes the partition results by sophisticated local search methods. Extensive experiments show that WindGP outperforms all state-of-the-art partition methods by 1.35 - 27 times on both dense and sparse distributed graph algorithms, and has good scalability with graph size and machine number.

cs.DC↗

RaftGP: Random Fast Graph Partitioning

Graph partitioning (GP), a.k.a. community detection, is a classic problem that divides the node set of a graph into densely-connected blocks. Following prior work on the IEEE HPEC Graph Challenge benchmark and recent advances in graph machine learning, we propose a novel RAndom FasT Graph Partitioning (RaftGP) method based on an efficient graph embedding scheme. It uses the Gaussian random projection to extract community-preserving features from classic GP objectives. These features are fed into a graph neural network (GNN) to derive low-dimensional node embeddings. Surprisingly, our experiments demonstrate that a randomly initialized GNN even without training is enough for RaftGP to derive informative community-preserving embeddings and support high-quality GP. To enable the derived embeddings to tackle GP, we introduce a hierarchical model selection algorithm that simultaneously determines the number of blocks and the corresponding GP result. We evaluate RaftGP on the Graph Challenge benchmark and compare the performance with five baselines, where our method can achieve a better trade-off between quality and efficiency. In particular, compared to the baseline algorithm of the IEEE HPEC Graph Challenge, our method is 6.68x -- 23.9x faster on graphs with 1E3 -- 5E4 nodes and at least 64.5x faster on larger (1E5 node) graphs on which the baseline takes more than 1E4 seconds. Our method achieves better accuracy on all test cases. We also develop a new graph generator to address some limitations of the original generator in the benchmark.

cs.SI↗

Key Gene Mining in Transcriptional Regulation for Specific Biological Processes with Small Sample Sizes Using Multi-network pipeline Transformer

Gene mining is an important topic in the field of life sciences, but traditional machine learning methods cannot consider the regulatory relationships between genes. Deep learning methods perform poorly in small sample sizes. This study proposed a deep learning method, called TransGeneSelector, that can mine critical regulatory genes involved in certain life processes using a small-sample transcriptome dataset. The method combines a WGAN-GP data augmentation network, a sample filtering network, and a Transformer classifier network, which successfully classified the state (germinating or dry seeds) of Arabidopsis thaliana seed in a dataset of 79 samples, showing performance comparable to that of Random Forests. Further, through the use of SHapley Additive exPlanations method, TransGeneSelector successfully mined genes involved in seed germination. Through the construction of gene regulatory networks and the enrichment analysis of KEGG, as well as RT-qPCR quantitative analysis, it was confirmed that these genes are at a more upstream regulatory level than those Random Forests mined, and the top 11 genes that were uniquely mined by TransGeneSelector were found to be related to the KAI2 signaling pathway, which is of great regulatory importance for germination-related genes. This study provides a practical tool for life science researchers to mine key genes from transcriptome data.

q-bio.QM↗

Comprehensive evaluation of deep and graph learning on drug-drug interactions prediction

Recent advances and achievements of artificial intelligence (AI) as well as deep and graph learning models have established their usefulness in biomedical applications, especially in drug-drug interactions (DDIs). DDIs refer to a change in the effect of one drug to the presence of another drug in the human body, which plays an essential role in drug discovery and clinical research. DDIs prediction through traditional clinical trials and experiments is an expensive and time-consuming process. To correctly apply the advanced AI and deep learning, the developer and user meet various challenges such as the availability and encoding of data resources, and the design of computational methods. This review summarizes chemical structure based, network based, NLP based and hybrid methods, providing an updated and accessible guide to the broad researchers and development community with different domain knowledge. We introduce widely-used molecular representation and describe the theoretical frameworks of graph neural network models for representing molecular structures. We present the advantages and disadvantages of deep and graph learning methods by performing comparative experiments. We discuss the potential technical challenges and highlight future directions of deep and graph learning models for accelerating DDIs prediction.

cs.LG↗

State space model multiple imputation for missing data in non-stationary multivariate time series with application in digital Psychiatry

Mobile technology enables unprecedented continuous monitoring of an individual's behavior, social interactions, symptoms, and other health conditions, presenting an enormous opportunity for therapeutic advancements and scientific discoveries regarding the etiology of psychiatric illness. Continuous collection of mobile data results in the generation of a new type of data: entangled multivariate time series of outcome, exposure, and covariates. Missing data is a pervasive problem in biomedical and social science research, and the Ecological Momentary Assessment (EMA) using mobile devices in psychiatric research is no exception. However, the complex structure of multivariate time series introduces new challenges in handling missing data for proper causal inference. Data imputation is commonly recommended to enhance data utility and estimation efficiency. The majority of available imputation methods are either designed for longitudinal data with limited follow-up times or for stationary time series, which are incompatible with potentially non-stationary time series. In the field of psychiatry, non-stationary data are frequently encountered as symptoms and treatment regimens may experience dramatic changes over time. To address missing data in possibly non-stationary multivariate time series, we propose a novel multiple imputation strategy based on the state space model (SSMmp) and a more computationally efficient variant (SSMimpute). We demonstrate their advantages over other widely used missing data strategies by evaluating their theoretical properties and empirical performance in simulations of both stationary and non-stationary time series, subject to various missing mechanisms. We apply the SSMimpute to investigate the association between social network size and negative mood using a multi-year observational smartphone study of bipolar patients, controlling for confounding variables.

stat.ME↗