arXiv subjects

Feng Ren

Publications and source records attributed to Feng Ren.

14 recordsLinked to original sources

arXiv2026

Surviving Partial Rank Failures in Wide Expert-Parallel MoE Inference

Mixture-of-Experts (MoE) serving relies on wide expert parallelism (EP) to aggregate the memory capacity and bandwidth of many GPUs within one inference instance. This efficiency comes with a systems cost: every decoding step depends on token dispatch and combination across all active EP ranks, so even one rank failure can disrupt the entire service. Existing EP stacks handle such failures poorly because they treat membership as a fixed configuration established at initialization. The same rank set determines communicator state, expert placement, and the routing metadata baked into CUDA execution graphs, leaving the system with no way to shrink around a failure while keeping the instance valid. This paper argues that partial-failure tolerance should instead be formulated as a live EP validity problem. We present EEP, a communication and runtime substrate that represents membership as explicit, mutable runtime state. EEP repairs the specific state invalidated by a fault: it restores peer reachability without rebuilding the communication substrate, repairs lost expert coverage through a bandwidth-aware hierarchy, and reintegrates repaired ranks without forcing healthy ranks to recapture their CUDA graphs. We implement EEP in an EP serving stack integrated with SGLang and evaluate it under steady-state serving, failure recovery, and rank reintegration. The results show that explicit mutable membership preserves the steady-state fast path, staying within 4.4% of a fixed-membership DeepEP baseline under static serving, while turning a local rank fault from whole-instance downtime into two bounded interruptions. On a single-rank failure workload, EEP incurs an 11s recovery pause and an 8s reintegration pause, and restores throughput to within 95% of the pre-fault level within 52s, whereas a fixed-membership full-restart baseline remains unavailable until 348s.

cs.DC↗

arXiv2026

TENT: A Declarative Slice Spraying Engine for Performant and Resilient Data Movement in Disaggregated LLM Serving

Modern GPU clusters rely on complex, heterogeneous interconnects. As large language model (LLM) serving shifts toward agentic reasoning, KVCache becomes a first-class mobile asset, driving frequent migrations and massive elephant flows that dominate the execution critical path. Operating Mooncake Transfer Engine (TE) on thousands of GPUs exposed a fundamental flaw in existing frameworks: imperative, early-binding path selection. This rigidity results in state-blind striping that ignores congestion and grey failures, leading to bandwidth stranding. This also produces operational fragility where routine faults require manual intervention. We present TENT, a declarative orchestration engine that decouples transfer intent from physical execution. By abstracting interconnects into a unified resource pool, TENT shifts path resolution from initialization to slice-time late binding. Applications simply declare transfer intents, while TENT dynamically "sprays" fine-grained slices across rails based on real-time telemetry and predictive cost modeling. This orchestration eliminates head-of-line (HoL) blocking and enables transparent, sub-50 ms self-healing by rerouting slices around failures or degradations without application-level intervention. TENT serves as the production data plane for LLM inference and reinforcement learning (RL) pipelines at multiple industrial clusters. Our evaluation shows that TE+ outperforms state-of-the-art baselines, including Mooncake TE, NIXL, and UCCL. In LLM inference with SGLang HiCache, TE+ achieves up to 1.36x higher throughput and 26% lower P90 time-to-first-token (TTFT) than Mooncake TE. In RL pipelines, TENT accelerates parameter updates in Moonshot Checkpoint Engine by 20-26%.

cs.DC↗

arXiv2024

Quantum Computing-Enhanced Algorithm Unveils Novel Inhibitors for KRAS

The discovery of small molecules with therapeutic potential is a long-standing challenge in chemistry and biology. Researchers have increasingly leveraged novel computational techniques to streamline the drug development process to increase hit rates and reduce the costs associated with bringing a drug to market. To this end, we introduce a quantum-classical generative model that seamlessly integrates the computational power of quantum algorithms trained on a 16-qubit IBM quantum computer with the established reliability of classical methods for designing small molecules. Our hybrid generative model was applied to designing new KRAS inhibitors, a crucial target in cancer therapy. We synthesized 15 promising molecules during our investigation and subjected them to experimental testing to assess their ability to engage with the target. Notably, among these candidates, two molecules, ISM061-018-2 and ISM061-22, each featuring unique scaffolds, stood out by demonstrating effective engagement with KRAS. ISM061-018-2 was identified as a broad-spectrum KRAS inhibitor, exhibiting a binding affinity to KRAS-G12D at $1.4 \mu M$. Concurrently, ISM061-22 exhibited specific mutant selectivity, displaying heightened activity against KRAS G12R and Q61H mutants. To our knowledge, this work shows for the first time the use of a quantum-generative model to yield experimentally confirmed biological hits, showcasing the practical potential of quantum-assisted drug discovery to produce viable therapeutics. Moreover, our findings reveal that the efficacy of distribution learning correlates with the number of qubits utilized, underlining the scalability potential of quantum computing resources. Overall, we anticipate our results to be a stepping stone towards developing more advanced quantum generative models in drug discovery.

quant-ph↗

arXiv2023

Simulation of magnetic hyperthermia cancer treatment near a blood vessel

In this study, we conduct a study on magnetic hyperthermia treatment when a vessel is located near the tumor. The holistic framework is established to solve the process of tumor treatment. The interstitial tissue fluid, MNP distribution, temperature profile, and nanofluids are involved in the simulation. The study evaluates the cancer treatment efficacy by cumulative-equivalent-minutes-at-43 centigrade (CEM43), a widely accepted thermal dose. The influence of the nearby blood vessel is investigated, and parameter studies about the distance to the tumor, the width of the blood vessel, and the vessel direction are also conducted. After that, the effects of the fluid-structure interaction of moving vessel boundaries and blood rheology are discussed. The results demonstrate the cooling effect of a nearby blood vessel, and such effect reduces with the augment of the distance between the tumor and blood vessel. The combination of downward gravity and the cool effect from the lower horizontal vessel leads to the best performance with 97.77% ablation in the tumor and 0.87% injury in healthy tissue at distance d = 4 mm, but the cases of the vertical vessel are relatively poor. The vessel width and blood rheology affect the treatment by velocity gradient near the vessel wall. Additionally, the moving boundary almost has no impact on treatment efficacy. The simulation tool has been well-validated and the outcomes can provide a useful reference to magnetic hyperthermia treatment.

physics.flu-dyn↗

arXiv2023

Simulation of tumor ablation in hyperthermia cancer treatment: A parametric study

A holistic simulation framework is established on magnetic hyperthermia modeling to solve the treatment process of tumor, which is surrounded by a healthy tissue block. The interstitial tissue fluid, MNP distribution, temperature profile, and nanofluids are involved in the simulation. Study evaluates the cancer treatment efficacy by cumulative-equivalent-minutes-at-43 centigrade (CEM43), a widely accepted thermal dose coming from the cell death curve. Results are separated into the conditions of with or without gravity effect in the computational domain, where two baseline case are investigated and compared. An optimal treatment time 46.55 min happens in the baseline case without gravity, but the situation deteriorates with gravity effect where the time for totally killing tumor cells prolongs 36.11% and meanwhile causing 21.32% ablation in healthy tissue. For the cases without gravity, parameter study of Lewis number and Heat source number are conducted and the variation of optimal treatment time are both fitting to the inverse functions. For the case considering the gravity, parameters Buoyancy ratio and Darcy ratio are investigated and their influence on totally killing tumor cells and the injury on healthy tissue are matching with the parabolic functions. The results are beneficial to the prediction of various conditions, and provides useful guide to the magnetic hyperthermia treatment.

physics.med-ph↗

arXiv2022

Exploring the Advantages of Quantum Generative Adversarial Networks in Generative Chemistry

De novo drug design with desired biological activities is crucial for developing novel therapeutics for patients. The drug development process is time and resource-consuming, and it has a low probability of success. Recent advances in machine learning and deep learning technology have reduced the time and cost of the discovery process and therefore, improved pharmaceutical research and development. In this paper, we explore the combination of two rapidly-developing fields with lead candidate discovery in the drug development process. First, Artificial intelligence has already been demonstrated to successfully accelerate conventional drug design approaches. Second, quantum computing has demonstrated promising potential in different applications, such as quantum chemistry, combinatorial optimizations, and machine learning. This manuscript explores hybrid quantum-classical generative adversarial networks (GAN) for small molecule discovery. We substituted each element of GAN with a variational quantum circuit (VQC) and demonstrated the quantum advantages in the small drug discovery. Utilizing a VQC in the noise generator of a GAN to generate small molecules achieves better physicochemical properties and performance in the goal-directed benchmark than the classical counterpart. Moreover, we demonstrate the potential of a VQC with only tens of learnable parameters in the generator of GAN to generate small molecules. We also demonstrate the quantum advantage of a VQC in the discriminator of GAN. In this hybrid model, the number of learnable parameters is significantly less than the classical ones, and it can still generate valid molecules. The hybrid model with only tens of training parameters in the quantum discriminator outperforms the MLP-based one in terms of both generated molecule properties and the achieved KL divergence.

quant-ph↗

arXiv2022

Measurements of Rayleigh Ratios in Linear Alkylbenzene

In present work an experiment has been designed to measure the Rayleigh ratio directly at $405$ nm and $432$ nm for linear alkylbenzene which is a common solvent used in liquid scintillator detectors of neutrino experiments. The perpendicularly polarized Rayleigh ratio is determined to be $(4.52\pm 0.28)\times 10^{-6}$ m$^{-1}\cdot$ sr$^{-1}$ at $405$ nm and $(3.82\pm 0.24)\times 10^{-6}$ m$^{-1}\cdot$ sr$^{-1}$ at $432$ nm, and the corresponding Rayleigh scattering length is $L_{Ray} = 22.9\pm 0.3(\mathrm{stat.})\pm 1.7(\mathrm{sys.})$ m at $405$ nm and $L_{Ray}= 27.0\pm 0.9(\mathrm{stat.})\pm 1.8(\mathrm{sys.})$ m at $432$ nm.

physics.ins-det↗

arXiv2022

A Monte Carlo Method for Rayleigh Scattering in Liquid Detectors

A new Monte Carlo method has been implemented to describe the angular and polarization distributions of anisotropic liquids, like water and linear alkylbenzene, by considering orientational fluctuations of polarizability tensors. The scattered light of anisotropic liquids is depolarized with an angular distribution of $1+(1-\rho_v)/(1+3\rho_v)\cos^2\theta$, which is modified by the depolarization ratio $\rho_v$. A standalone experiment has validated the simulation results of LAB. The new method can provide more accurate knowledge on light propagation in large liquid detectors, which is beneficial to the developments of reconstruction for detectors.

physics.ins-det↗

arXiv2022

AlphaFold Accelerates Artificial Intelligence Powered Drug Discovery: Efficient Discovery of a Novel Cyclin-dependent Kinase 20 (CDK20) Small Molecule Inhibitor

The AlphaFold computer program predicted protein structures for the whole human genome, which has been considered as a remarkable breakthrough both in artificial intelligence (AI) application and structural biology. Despite the varying confidence level, these predicted structures still could significantly contribute to structure-based drug design of novel targets, especially the ones with no or limited structural information. In this work, we successfully applied AlphaFold in our end-to-end AI-powered drug discovery engines constituted of a biocomputational platform PandaOmics and a generative chemistry platform Chemistry42, to identify a first-in-class hit molecule of a novel target without an experimental structure starting from target selection towards hit identification in a cost- and time-efficient manner. PandaOmics provided the targets of interest and Chemistry42 generated the molecules based on the AlphaFold predicted structure, and the selected molecules were synthesized and tested in biological assays. Through this approach, we identified a small molecule hit compound for CDK20 with a Kd value of 8.9 +/- 1.6 uM (n = 4) within 30 days from target selection and after only synthesizing 7 compounds. Based on the available data, the second round of AI-powered compound generation was conducted and through which, a more potent hit molecule, ISM042-2 048, was discovered with a Kd value of 210.0 +/- 42.4 nM (n = 2), within 30 days and after synthesizing 6 compounds from the discovery of the first hit ISM042-2-001. To the best of our knowledge, this is the first reported small molecule targeting CDK20 and more importantly, this work is the first demonstration of AlphaFold application in the hit identification process in early drug discovery.

q-bio.BM↗

arXiv2020

Bluff body uses deep-reinforcement-learning trained active flow control to achieve hydrodynamic stealth

We propose a novel active-flow-control (AFC) strategy for bluff bodies to hide their hydrodynamic traces from predators. A group of windward-suction-leeward-blowing (WSLB) actuators are adopted to control the wake of a circular cylinder submerged in a uniform flow. An array of velocity sensors are deployed in the near wake to provide feedback signals. Through the data-driven deep reinforcement learning (DRL), effective control strategies are trained for the WSLB actuation to mitigate the cylinder's hydrodynamic signatures, i.e., strong shears and periodically shed vortices. Only a 0.29% deficit in streamwise velocity is detected, which is a 99.5% reduction from the uncontrolled value. The same control strategy is found to be also effective when the cylinder undergoes transverse vortex-induced vibration (VIV). The findings from this study can shed some lights on the design and operation of underwater structures and robotics to achieve hydrodynamic stealth.

physics.flu-dyn↗

arXiv2020

Applying deep reinforcement learning to active flow control in turbulent conditions

Machine learning has recently become a promising technique in fluid mechanics, especially for active flow control (AFC) applications. A recent work [J. Fluid Mech. (2019), vol. 865, pp. 281-302] has demonstrated the feasibility and effectiveness of deep reinforcement learning (DRL) in performing AFC over a circular cylinder at $Re = 100$, i.e., in the laminar flow regime. As a follow-up study, we investigate the same AFC problem at an intermediate Reynolds number, i.e., $Re = 1000$, where the turbulence in the flow poses great challenges to the control. The results show that the DRL agent can still find effective control strategies, but requires much more episodes in the learning. A remarkable drag reduction of around $30\%$ is achieved, which is accompanied by elongation of the recirculation bubble and reduction of turbulent fluctuations in the cylinder wake. To our best knowledge, this study is the first successful application of DRL to AFC in weak turbulent conditions. It therefore sets a new milestone in progressing towards AFC in strong turbulent flows.

physics.flu-dyn↗

arXiv2020

Precise tuning of the superconducting properties of Mn-doped Al films for transition edge sensors by ion-implantation

Magnetic impurities in metallic superconductors are important for both fundamental and applied sciences. In this study, we focused on dilute Mn-doped aluminum (AlMn) films, which are common superconducting materials used to make transition edge sensors (TES). We developed a multi-energy ion-implantation technique to make AlMn films. Compared with frequently used sputtering techniques, ion-implantation provides more precise and reliable control of the Mn doping concentration in the AlMn films.The ion implantation also enables us to quantitatively analyze the superconducting transition temperature curve as a function of the Mn doping concentration. We found that Mn dopants act as magnetic impurities and suppression of superconductivity is counteracted by the antiferromagnetic Ruderman Kittel Kasuya Yosida interaction among Mn dopants. The RKKY interaction can be tuned through defect engineering in the ion-implantation process and through post-implantation annealing.

cond-mat.mtrl-sci↗

arXiv2020

Deep Reinforcement Learning in Fluid Mechanics: a promising method for both Active Flow Control and Shape Optimization

In recent years, Artificial Neural Networks (ANNs) and Deep Learning have become increasingly popular across a wide range of scientific and technical fields, including Fluid Mechanics. While it will take time to fully grasp the potentialities as well as the limitations of these methods, evidence is starting to accumulate that point to their potential in helping solve problems for which no theoretically optimal solution method is known. This is particularly true in Fluid Mechanics, where problems involving optimal control and optimal design are involved. Indeed, such problems are famously difficult to solve effectively with traditional methods due to the combination of non linearity, non convexity, and high dimensionality they involve. By contrast, Deep Reinforcement Learning (DRL), a method of optimization based on teaching empirical strategies to an ANN through trial and error, is well adapted to solving such problems. In this short review, we offer an insight into the current state of the art of the use of DRL within fluid mechanics, focusing on control and optimal design problems.

physics.flu-dyn↗

arXiv2018

Quantitative and functional post-translational modification proteomics reveals that TREPH1 plays a role in plant thigmomorphogenesis

Plants can sense both intracellular and extracellular mechanical forces and can respond through morphological changes. The signaling components responsible for mechanotransduction of the touch response are largely unknown. Here, we performed a high-throughput SILIA (stable isotope labeling in Arabidopsis)-based quantitative phosphoproteomics analysis to profile changes in protein phosphorylation resulting from 40 seconds of force stimulation in Arabidopsis thaliana. Of the 24 touch-responsive phosphopeptides identified, many were derived from kinases, phosphatases, cytoskeleton proteins, membrane proteins and ion transporters. TOUCH-REGULATED PHOSPHOPROTEIN1 (TREPH1) and MAP KINASE KINASE 2 (MKK2) and/or MKK1 became rapidly phosphorylated in touch-stimulated plants. Both TREPH1 and MKK2 are required for touch-induced delayed flowering, a major component of thigmomorphogenesis. The treph1-1 and mkk2 mutants also exhibited defects in touch-inducible gene expression. A non-phosphorylatable site-specific isoform of TREPH1 (S625A) failed to restore touch-induced flowering delay of treph1-1, indicating the necessity of S625 for TREPH1 function and providing evidence consistent with the possible functional relevance of the touch-regulated TREPH1 phosphorylation. Bioinformatic analysis and biochemical subcellular fractionation of TREPH1 protein indicate that it is a soluble protein. Altogether, these findings identify new protein players in Arabidopsis thigmomorphogenesis regulation, suggesting that protein phosphorylation may play a critical role in plant force responses.

q-bio.GN↗