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Jie Deng

Publications and source records attributed to Jie Deng.

53 records · Page 3Linked to original sources

Medical Visual Prompting (MVP): A Unified Framework for Versatile and High-Quality Medical Image Segmentation

Accurate segmentation of lesion regions is crucial for clinical diagnosis and treatment across various diseases. While deep convolutional networks have achieved satisfactory results in medical image segmentation, they face challenges such as loss of lesion shape information due to continuous convolution and downsampling, as well as the high cost of manually labeling lesions with varying shapes and sizes. To address these issues, we propose a novel medical visual prompting (MVP) framework that leverages pre-training and prompting concepts from natural language processing (NLP). The framework utilizes three key components: Super-Pixel Guided Prompting (SPGP) for superpixelating the input image, Image Embedding Guided Prompting (IEGP) for freezing patch embedding and merging with superpixels to provide visual prompts, and Adaptive Attention Mechanism Guided Prompting (AAGP) for pinpointing prompt content and efficiently adapting all layers. By integrating SPGP, IEGP, and AAGP, the MVP enables the segmentation network to better learn shape prompting information and facilitates mutual learning across different tasks. Extensive experiments conducted on five datasets demonstrate superior performance of this method in various challenging medical image tasks, while simplifying single-task medical segmentation models. This novel framework offers improved performance with fewer parameters and holds significant potential for accurate segmentation of lesion regions in various medical tasks, making it clinically valuable.

cs.CV↗

VersaT2I: Improving Text-to-Image Models with Versatile Reward

Recent text-to-image (T2I) models have benefited from large-scale and high-quality data, demonstrating impressive performance. However, these T2I models still struggle to produce images that are aesthetically pleasing, geometrically accurate, faithful to text, and of good low-level quality. We present VersaT2I, a versatile training framework that can boost the performance with multiple rewards of any T2I model. We decompose the quality of the image into several aspects such as aesthetics, text-image alignment, geometry, low-level quality, etc. Then, for every quality aspect, we select high-quality images in this aspect generated by the model as the training set to finetune the T2I model using the Low-Rank Adaptation (LoRA). Furthermore, we introduce a gating function to combine multiple quality aspects, which can avoid conflicts between different quality aspects. Our method is easy to extend and does not require any manual annotation, reinforcement learning, or model architecture changes. Extensive experiments demonstrate that VersaT2I outperforms the baseline methods across various quality criteria.

cs.CV↗

Hydrogen diffusion in the lower mantle revealed by machine learning potentials

Hydrogen may be incorporated into nominally anhydrous minerals including bridgmanite and post-perovskite as defects, making the Earth's deep mantle a potentially significant water reservoir. The diffusion of hydrogen and its contribution to the electrical conductivity in the lower mantle are rarely explored and remain largely unconstrained. Here we calculate hydrogen diffusivity in hydrous bridgmanite and post-perovskite, using molecular dynamics simulations driven by machine learning potentials of ab initio quality. Our findings reveal that hydrogen diffusivity significantly increases with increasing temperature and decreasing pressure, and is considerably sensitive to hydrogen incorporation mechanism. Among the four defect mechanisms examined, (Mg + 2H)$_{\rm Si}$ and (Al + H)$_{\rm Si}$ show similar patterns and yield the highest hydrogen diffusivity. Hydrogen diffusion is generally faster in post-perovskite than in bridgmanite, and these two phases exhibit distinct diffusion anisotropies. Overall, hydrogen diffusion is slow on geological time scales and may result in heterogeneous water distribution in the lower mantle. Additionally, the proton conductivity of bridgmanite for (Mg + 2H)$_{\rm Si}$ and (Al + H)$_{\rm Si}$ defects aligns with the same order of magnitude of lower mantle conductivity, suggesting that the water distribution in the lower mantle may be inferred by examining the heterogeneity of electrical conductivity.

cond-mat.mtrl-sci↗

Majority of water hides deep in the interiors of exoplanets

Water is an important component of exoplanets, with its distribution, i.e., whether at the surface or deep inside, fundamentally influencing the planetary properties. The distribution of water in most exoplanets is determined by yet-unknown partitioning coefficients at extreme conditions. Our new first-principles molecular dynamics simulations reveal that water strongly partitions into iron over silicate at high pressures and thus would preferentially stay in a planet's core. Furthermore, we model planet interiors by considering the effect of water on density, melting temperature, and water partitioning. The results shatter the notion of water worlds as imagined before: the majority of the bulk water budget (even more than 95%) can be stored deep within the core and the mantle, and not at the surface. For planets more massive than ~6 Earth's mass and Earth-size planets (of lower mass and small water budgets), the majority of water resides deep in the cores of planets, Whether water is assumed to be at the surface or at depth can affect the radius by up to 25% for a given mass. This has drastic consequences for the inferred water distribution in exoplanets from mass-radius data.

astro-ph.EP↗

Diffusion-Driven Generative Framework for Molecular Conformation Prediction

The task of deducing three-dimensional molecular configurations from their two-dimensional graph representations holds paramount importance in the fields of computational chemistry and pharmaceutical development. The rapid advancement of machine learning, particularly within the domain of deep generative networks, has revolutionized the precision of predictive modeling in this context. Traditional approaches often adopt a two-step strategy: initially estimating interatomic distances and subsequently refining the spatial molecular structure by solving a distance geometry problem. However, this sequential approach occasionally falls short in accurately capturing the intricacies of local atomic arrangements, thereby compromising the fidelity of the resulting structural models. Addressing these limitations, this research introduces a cutting-edge generative framework named DDGF. This framework is grounded in the principles of diffusion observed in classical non-equilibrium thermodynamics. DDGF views atoms as discrete entities and excels in guiding the reversal of diffusion, transforming a distribution of stochastic noise back into coherent molecular structures through a process akin to a Markov chain. This transformation commences with the initial representation of a molecular graph in an abstract latent space, culminating in the realization of three-dimensional structures via a sophisticated bilevel optimization scheme meticulously tailored to meet the specific requirements of the task. One of the formidable challenges in this modeling endeavor involves preserving roto-translational invariance to ensure that the generated molecular conformations adhere to the laws of physics. Extensive experimental evaluations confirm the efficacy of the proposed DDGF in comparison to state-of-the-art methods.

q-bio.BM↗

SR-LIVO: LiDAR-Inertial-Visual Odometry and Mapping with Sweep Reconstruction

Existing LiDAR-inertial-visual odometry and mapping (LIV-SLAM) systems mainly utilize the LiDAR-inertial odometry (LIO) module for structure reconstruction and the visual-inertial odometry (VIO) module for color rendering. However, the accuracy of VIO is often compromised by photometric changes, weak textures and motion blur, unlike the more robust LIO. This paper introduces SR-LIVO, an advanced and novel LIV-SLAM system employing sweep reconstruction to align reconstructed sweeps with image timestamps. This allows the LIO module to accurately determine states at all imaging moments, enhancing pose accuracy and processing efficiency. Experimental results on two public datasets demonstrate that: 1) our SRLIVO outperforms existing state-of-the-art LIV-SLAM systems in both pose accuracy and time efficiency; 2) our LIO-based pose estimation prove more accurate than VIO-based ones in several mainstream LIV-SLAM systems (including ours). We have released our source code to contribute to the community development in this field.

cs.CV↗

3D cine-magnetic resonance imaging using spatial and temporal implicit neural representation learning (STINR-MR)

The reconstruction of 3D cine-MRI is challenged by highly undersampled k-space data in each cine frame, due to the slow speed of MR signal acquisition. We proposed a machine learning-based framework, spatial and temporal implicit neural representation learning (STINR-MR), for accurate 3D cine-MRI reconstruction from highly undersampled data. STINR-MR used a joint reconstruction and deformable registration approach to address the ill-posed spatiotemporal reconstruction problem, by solving a reference-frame 3D MR image and a corresponding motion model which deforms the reference frame to each cine frame. The reference-frame image was reconstructed as a spatial implicit neural representation (INR) network, which learns the mapping from input 3D spatial coordinates to corresponding MR values. The dynamic motion model was constructed via a temporal INR, as well as basis deformation vector fields(DVFs) extracted from prior/onboard 4D-MRIs. The learned INR encodes input time points and outputs corresponding weighting factors to combine the basis DVFs into time-resolved motion fields. STINR-MR was evaluated using MR data simulated from the 4D extended cardiac-torso (XCAT) digital phantom and MR data acquired clinically from a healthy human subject. Its reconstruction accuracy was also compared with that of the model-based non-rigid motion estimation method (MR-MOTUS). STINR-MR can reconstruct 3D cine-MR images with high temporal (<100 ms) and spatial (3 mm) resolutions to accurately capture different irregular motion patterns. Compared with MR-MOTUS, STINR-MR consistently reconstructed images with better quality, fewer artifacts, and achieved superior tumor localization accuracy. STINR-MR provides a lightweight and efficient framework for accurate 3D cine-MRI reconstruction, and does not require external data for pre-training to avoid generalizability issues encountered in deep learning methods.

physics.med-ph↗

Unlocking the Structural Mystery of Vaterite CaCO3

Calcium carbonate (CaCO3), the most abundant biogenic mineral on earth, plays a crucial role in various fields. Of the four polymorphs, calcite, aragonite, vaterite, and amorphous CaCO3, vaterite is the most enigmatic one due to an ongoing debate regarding its structure that has persisted for nearly a century. In this work, based on systematic transmission electron microscopy characterizations, elaborate crystallographic analysis and machine learning aided molecular dynamics simulations with ab initio accuracy, we reveal that vaterite can be regarded as a polytypic structure. The basic phase is a monoclinic lattice possessing pseudohexagonal symmetry. Direct imaging and atomic-scale simulations provide evidence that a single grain of vaterite can have three orientation variants. Additionally, we find that vaterite undergoes a second-order phase transition. These atomic scale insights provide a comprehensive understanding of the structure of vaterite and offer new perspectives on the biomineralization process of calcium carbonate.

cond-mat.mtrl-sci↗

Joint k-TE Space Image Reconstruction and Data Fitting for T2 Mapping

Objectives: To develop a joint k-TE reconstruction algorithm to reconstruct the T2-weighted (T2W) images and T2 map simultaneously. Materials and Methods: The joint k-TE reconstruction model was formulated as an optimization problem subject to a self-consistency condition of the exponential decay relationship between the T2W images and T2 map. The objective function included a data fidelity term enforcing the agreement between the solution and the measured k-space data, together with a spatial regularization term on image properties of the T2W images. The optimization problem was solved using Alternating-Direction Method of Multipliers (ADMM). We tested the joint k-TE method in phantom data and healthy volunteer scans with fully-sampled and under-sampled k-space lines. Image quality of the reconstructed T2W images and T2 map, and the accuracy of T2 measurements derived by the joint k- TE and the conventional signal fitting method were compared. Results: The proposed method improved image quality with reduced noise and less artifacts on both T2W images and T2 map, and increased measurement consistency in T2 relaxation time measurements compared with the conventional method in all data sets. Conclusions: The proposed reconstruction method outperformed the conventional magnitude image-based signal fitting method in image quality and stability of quantitative T2 measurements

physics.med-ph↗

A superconducting nanowire photon number resolving four-quadrant detector-based Gigabit deep-space laser communication receiver prototype

Deep space explorations require transferring huge amounts of data quickly from very distant targets. Laser communication is a promising technology that can offer a data rate of magnitude faster than conventional microwave communication due to the fundamentally narrow divergence of light. This study demonstrated a photon-sensitive receiver prototype with over Gigabit data rate, immunity to strong background photon noise, and simultaneous tracking ability. The advantages are inherited from a joint-optimized superconducting nanowire single-photon detector (SNSPD) array, designed into a four-quadrant structure with each quadrant capable of resolving six photons. Installed in a free-space coupled and low-vibration cryostat, the system detection efficiency reached 72.7%, the detector efficiency was 97.5%, and the total photon counting rate was 1.6 Gcps. Additionally, communication performance was tested for pulse position modulation (PPM) format. A series of signal processing methods were introduced to maximize the performance of the forward error correction (FEC) code. Consequently, the receiver exhibits a faster data rate and better sensitivity by about twofold (1.76 photons/bit at 800 Mbps and 3.40 photons/bit at 1.2 Gbps) compared to previously reported results (3.18 photon/bit at 622 Mbps for the Lunar Laser Communication Demonstration). Furthermore, communications in strong background noise and with simultaneous tracking ability were demonstrated aimed at the challenges of daylight operation and accurate tracking of dim beacon light in deep space scenarios.

physics.ins-det↗

High-order Photonic Cavity Modes Enabled 3D Structural Color

It remains a challenge to directly print three-dimensional arbitrary shapes that exhibit structural colors at the micrometer scale. Woodpile photonic crystals (WPCs) fabricated via two-photon lithography (TPL) are promising as building blocks to produce 3D geometries that generate structural colors due to their ability to exhibit either omnidirectional or anisotropic photonic stopbands. However, existing approaches have focused on achieving structural colors when illuminating WPCs from the top, which necessitates print resolutions beyond the limit of commercial TPL and/or post-processing techniques. Here, we devised a new strategy to support high-order photonic cavity modes upon side-illumination on WPCs that surprisingly generate large reflectance peaks in the visible spectrum. Based on that, we demonstrate one-step printing of 3D photonic structural colors without requiring post-processing or subwavelength features. Vivid colors with reflectance peaks exhibiting a full width at half maximum of ~25 nm, a maximum reflectance of 50%, gamut of ~85% of sRGB, and large viewing angles, were achieved. In addition, we also demonstrated voxel-level manipulation and control of colors in arbitrary-shaped 3D objects constituted with WPCs as unit cells, which has great potential for applications in dynamic color displays, colorimetric sensing, anti-counterfeiting, and light-matter interaction platforms.

physics.optics↗

Phase-change perovskite tunable microlaser

Since the invention of the laser, adoption of new gain media and device architectures has provided solutions to a variety of applications requiring specific power, size, spectral, spatial, and temporal tunability. Here we introduce a fundamentally new type of tunable semiconductor laser based on a phase-change perovskite metasurface that acts simultaneously as gain medium and optical cavity. As a proof of principle demonstration, we fabricate a subwavelength-thin perovskite metasurface supporting bound states in the continuum (BICs). Upon the perovskite structural phase transitions, both its refractive index and gain vary substantially, inducing fast (1.35 nm/K rate) and broad spectral tunability (>15 nm in the near-infrared), deterministic spatial mode hopping between polarization vortexes, and hysteretic optical bistability of the microlaser. These features highlight the uniqueness of phase-change perovskite tunable lasers, which may find wide applications in compact and low-cost optical multiplexers, sensors, memories, and LIDARs.

physics.optics↗

Supervised Learning Based Online Tracking Filters: An XGBoost Implementation

The target state filter is an important module in the traditional target tracking framework. In order to get satisfactory tracking results, traditional Bayesian methods usually need accurate motion models, which require the complicated prior information and parameter estimation. Therefore, the modeling process has a key impact on traditional Bayesian filters for target tracking. However, when encountering unknown prior information or the complicated environment, traditional Bayesian filters have the limitation of greatly reduced accuracy. In this paper, we propose a supervised learning based online tracking filter(SLF). First, a complete tracking filter framework based on supervised learning is established, which is directly based on data-driven and establishes the mapping relationship between data. In other words, the proposed filter does not require the prior information about target dynamics and clutter distribution. Then, an implementation based on eXtreme Gradient Boosting (XGBoost) is provided, which proves the portability and applicability of the SLF framework. Meanwhile, the proposed framework will encourage other researchers to continue to expand the field of combining traditional filters with supervised learning. Finally, numerical simulation experiments prove the effectiveness of the proposed filter.

eess.SP↗

Coulomb blockade in Etched Single and Few Layer MoS2 Nanoribbons

Confinement in two-dimensional transition metal dichalcogenides is an attractive platform for trapping single charge and spins for quantum information processing. Here, we present low temperature electron transport through etched 50-70nm MoS2 nanoribbons showing current oscillations as a function of gate voltage. On further investigations current through the device forms diamond shaped domains as a function of source-drain and gate voltage. We associate these current oscillations and diamond shaped current domains with Coulomb blockade due to single electron tunneling through a quantum dot formed in the MoS2 nanoribbon. From the size of the Coulomb diamond, we estimate the quantum dot size as small as 10-35nm. We discuss the possible origins of quantum dot in our nanoribbon device and prospects to control or engineer the quantum dot in such etched MoS2 nanoribbons which can be a promising platform for spin-valley qubits in two-dimensional transition metal dichalcogenides.

cond-mat.mes-hall↗

High-Efficiency Ultra-Violet Dielectric Meta-Holograms with Antiferromagnetic Resonances

Metasurfaces with spatially varying subwavelength structures enable full control of electromagnetic waves over a wide spectrum. High-efficiency metasurfaces, especially in a transmission mode, are of practical significance in optical elements and systems, hitherto their operating frequencies have been expanded down to visible-wavelength ranges. Challenges of developing shorter-wavelength metasurfaces originate from electromagnetic loss caused by strong absorption for most high-refractive-index materials. Here we introduce a large-bandgap semiconductor material-niobium pentoxide (Nb2O5)-to engineer a ultraviolet meta-hologram with a total efficiency of 81% at 355nm wavelength. This meta-hologram modulates the geometric phase of transmitted circular-polarization light via orientation-varying high-aspect-ratio nano-bricks that are elaborately designed to excite antiferromagnetic resonances. We reveal that the induced antiferromagnetic modes maintain one component (e.g., Ex-component) of incident light through even-numbered antiparallel magnetic dipoles (AMDs) but reverse the other component (e.g., Ey-component) via odd-numbered AMDs, thus realizing high-efficiency polarization conversion. Our approach might open the door towards high-performance ultraviolet-light nanophotonics and meta-optics.

physics.optics↗

ComFlux: External Composition and Adaptation of Pervasive Applications

Technology is becoming increasingly pervasive. At present, the system components working together to provide functionality, be they purely software or with a physical element, tend to operate within silos, bound to a particular application or usage. This is counter to the wider vision of pervasive computing, where a potentially limitless number of applications can be realised through the dynamic and seamless interactions of system components. We believe this application composition should be externally controlled, driven by policy and subject to access control. We present ComFlux, our open source middleware, and show through a number of designs and implementations, how it supports this functionality with acceptable overhead.

cs.CY↗

Ag diffusion in SiC high-energy grain boundaries: kinetic Monte Carlo study with first-principle calculations

The diffusion of silver (Ag) impurities in high energy grain boundaries (HEGBs) of cubic (3C) silicon carbide (SiC) is studied using an ab initio based kinetic Monte Carlo (kMC) model. This study assesses the hypothesis that the HEGB diffusion is responsible for Ag release in Tristructural-Isotropic fuel particles, and provides a specific example to increase understanding of impurity diffusion in highly disordered grain boundaries. The HEGB environment was modeled by an amorphous SiC. The structure and stability of Ag defects were calculated using density functional theory code. The defect energetics suggested that the fastest diffusion takes place via an interstitial mechanism in a-SiC. The formation energy of Ag interstitials and the kinetic resolved activation energies between them were well approximated with Gaussian distributions that were then sampled in the kMC. The diffusion of Ag was simulated with the effective medium model using kMC. At 1200-1600C, Ag in a HEGB is predicted to exhibit an Arrhenius type diffusion and with a diffusion prefactor and effective activation energy of (2.73+-1.09)*10-10 m2s-1 and 2.79+-0.18 eV, respectively. The comparison between HEGB results to other theoretical studies suggested not only that GB diffusion is predominant over bulk diffusion, but also that the HEGB is one of fastest grain boundary paths for Ag diffusion in SiC. The Ag diffusion coefficient in the HEGB shows a good agreement with ion-implantation measurements, but is 2-3 orders of magnitude lower than the diffusion coefficients extracted from integral release measurements. The discrepancy between GB diffusion and integral release measurements suggests that other contributions are responsible for the fast release of Ag in some experiments and we propose that these contributions may arise from radiation enhanced diffusion.

cond-mat.mtrl-sci↗