Conditional Diffusion Models

Conditional Diffusion Models are powerful surrogates for emulating complex spatiotemporal dynamics, yet they often fail to match the accuracy of deterministic neural emulators for high-precision tasks. In this work, we address two critical limitations of autoregressive PDE diffusion models: their sub-optimal single-step accuracy and the prohibitive computational cost of unrolled training. First, we characterize the relationship between the noise schedule, the reconstruction error reduction rate and the diffusion exposure bias, demonstrating that standard schedules lead to suboptimal reconstruction error. Leveraging this insight, we propose an Adaptive Noise Schedule framework that minimizes inference reconstruction error by dynamically constraining the model's exposure bias. We further show that this optimized schedule enables a fast Proxy Unrolled Training method to stabilize long-term rollouts without the cost of full Markov Chain sampling. Both proposed methods enable significant improvements in short-term accuracy and long-term stability over diffusion and deterministic baselines on diverse benchmarks, including forced Navier-Stokes, Kuramoto-Sivashinsky and Transonic Flow.

Immunohistochemistry (IHC) is essential for assessing specific immune biomarkers like Human Epidermal growth-factor Receptor 2 (HER2) in breast cancer. However, the traditional protocols of obtaining IHC stains are resource-intensive, time-consuming, and prone to structural damages. Virtual staining has emerged as a scalable alternative, but it faces significant challenges in preserving fine-grained cellular structures while accurately translating biochemical expressions. Current state-of-the-art methods still rely on Generative Adversarial Networks (GANs) or standard convolutional U-Net diffusion models that often struggle with "structure and staining trade-offs". The generated samples are either structurally relevant but blurry, or texturally realistic but have artifacts that compromise their diagnostic use. In this paper, we introduce HistDiT, a novel latent conditional Diffusion Transformer (DiT) architecture that establishes a new benchmark for visual fidelity in virtual histological staining. The novelty introduced in this work is, a) the Dual-Stream Conditioning strategy that explicitly maintains a balance between spatial constraints via VAE-encoded latents and semantic phenotype guidance via UNI embeddings; b) the multi-objective loss function that contributes to sharper images with clear morphological structure; and c) the use of the Structural Correlation Metric (SCM) to focus on the core morphological structure for precise assessment of sample quality. Consequently, our model outperforms existing baselines, as demonstrated through rigorous quantitative and qualitative evaluations.

Current video captioning methods usually use an encoder-decoder structure to generate text autoregressively. However, autoregressive methods have inherent limitations such as slow generation speed and large cumulative error. Furthermore, the few non-autoregressive counterparts suffer from deficiencies in generation quality due to the lack of sufficient multimodal interaction modeling. Therefore, we propose a non-autoregressive framework based on Diffusion model for Video Captioning (DiffVC) to address these issues. Its parallel decoding can effectively solve the problems of generation speed and cumulative error. At the same time, our proposed discriminative conditional Diffusion Model can generate higher-quality textual descriptions. Specifically, we first encode the video into a visual representation. During training, Gaussian noise is added to the textual representation of the ground-truth caption. Then, a new textual representation is generated via the discriminative denoiser with the visual representation as a conditional constraint. Finally, we input the new textual representation into a non-autoregressive language model to generate captions. During inference, we directly sample noise from the Gaussian distribution for generation. Experiments on MSVD, MSR-VTT, and VATEX show that our method can outperform previous non-autoregressive methods and achieve comparable performance to autoregressive methods, e.g., it achieved a maximum improvement of 9.9 on the CIDEr and improvement of 2.6 on the B@4, while having faster generation speed. The source code will be available soon.

Text-to-Image (T2I) diffusion/flow models have recently achieved remarkable progress in visual fidelity and text alignment. However, they remain limited when users need to precisely control image layouts, something that natural language alone cannot reliably express. Controllable generation methods augment the initial T2I model with additional conditions that more easily describe the scene. Prior works straightforwardly train the augmented network with the same loss as the initial network. Although natural at first glance, this can lead to very long training times in some cases before convergence. In this work, we revisit the training objective of controllable diffusion models through a detailed analysis of their denoising dynamics. We show that direct supervision on the clean target image, dubbed $x_0$-supervision, or an equivalent re-weighting of the diffusion loss, yields faster convergence. Experiments on multiple control settings demonstrate that our formulation accelerates convergence by up to 2$\times$ according to our novel metric (mean Area Under the Convergence Curve - mAUCC), while also improving both visual quality and conditioning accuracy. Our code is available at https://github.com/CEA-LIST/x0-supervision

Self-conditioning has been central to the success of continuous diffusion language models, as it allows models to correct previous errors. Yet its ability degrades precisely in the regime where diffusion is most attractive for deployment: few-step sampling for fast inference. In this study, we show that when models only have a few denoising steps, inaccurate self-conditioning induces a substantial approximation gap; this mistake compounds across denoising steps and ultimately dominate the sample quality. To address this, we propose a novel training framework that handles these errors during learning by perturbing the self-conditioning signal to match inference noise, improving robustness to prior estimation errors. In addition, we introduce a token-level noise-awareness mechanism that prevents training from saturation, hence improving optimization. Extensive experiments across conditional generation benchmarks demonstrate that our framework surpasses standard continuous diffusion models while providing up to 400x faster inference speed, and remains competitive against other one-step diffusion frameworks.

We consider constrained ergodic resource optimization in wireless networks with graph-structured interference. We train a diffusion model policy to match expert conditional distributions over resource allocations. By leveraging a primal-dual (expert) algorithm, we generate primal iterates that serve as draws from the corresponding expert conditionals for each training network instance. We view the allocations as stochastic graph signals supported on known channel state graphs. We implement the diffusion model architecture as a U-Net hierarchy of graph neural network (GNN) blocks, conditioned on the channel states and additional node states. At inference, the learned generative model amortizes the iterative expert policy by directly sampling allocation vectors from the near-optimal conditional distributions. In a power-control case study, we show that time-sharing the generated power allocations achieves near-optimal ergodic sum-rate utility and near-feasible ergodic minimum-rates, with strong generalization and transferability across network states.

We study the classification task of structured-light beams after propagation through a random turbulent medium. The received speckle patterns are generated by numerical simulation of a stochastic paraxial propagation model, and the classification task is formulated over a finite alphabet of 15 OAM source classes. We benchmark intensity and autocorrelation inputs using SimpleCNN and ResNet-18 as classifiers. We also quantify the effect of training-set size and receiver-window misalignment. Since additional propagated samples may be costly to obtain, we develop a class-conditioned diffusion model for generative augmentation of turbulence-degraded intensity images. The main contribution is a spectrum-aware diffusion objective: a pixel-domain loss combined with a Fourier-domain Bregman regularizer designed to preserve high-frequency speckle statistics. We prove that this hybrid objective is consistent with the posterior-mean regression target of the diffusion model and show that generated samples substantially improve low-data classification.

The ocean interior regulates Earth's climate but remains sparsely observed due to limited in situ measurements, while satellite observations are restricted to the surface. We present a depth-aware generative framework for reconstructing high-resolution three-dimensional ocean states from extremely sparse surface data. Our approach employs a conditional denoising diffusion probabilistic model (DDPM) trained on sea surface height and temperature observations with up to 99.9 percent sparsity, without reliance on a background dynamical model. By incorporating continuous depth embeddings, the model learns a unified vertical representation of the ocean states and generalizes to previously unseen depths. Applied to the Gulf of Mexico, the framework accurately reconstructs subsurface temperature, salinity, and velocity fields across multiple depths. Evaluations using statistical metrics, spectral analysis, and heat transport diagnostics demonstrate recovery of both large-scale circulation and multiscale variability. These results establish generative diffusion models as a scalable approach for probabilistic ocean reconstruction in data-limited regimes, with implications for climate monitoring and forecasting.

Facial Expression Recognition (FER) is essential for human-machine interaction, as it enables machines to interpret human emotions and internal states from facial affective behaviors. Although deep learning has significantly advanced FER performance, most existing deep-learning-based FER methods rely heavily on discriminative classifiers for fast predictions. These models tend to learn shortcuts and are vulnerable to even minor distribution shifts. To address this issue, we adopt a conditional generative diffusion model and introduce the Emotion Diffusion Classifier (EmoDC) for FER, which demonstrates enhanced adversarial robustness. However, retraining EmoDC using standard strategies fails to penalize incorrect categorical descriptions, leading to suboptimal recognition performance. To improve EmoDC, we propose margin-based discrepancy training, which encourages accurate predictions when conditioned on correct categorical descriptions and penalizes predictions conditioned on mismatched ones. This method enforces a minimum margin between noise-prediction errors for correct and incorrect categories, thereby enhancing the model's discriminative capability. Nevertheless, using a fixed margin fails to account for the varying difficulty of noise prediction across different images, limiting its effectiveness. To overcome this limitation, we propose Adaptive Margin Discrepancy Training (AMDiT), which dynamically adjusts the margin for each sample. Extensive experiments show that AMDiT significantly improves the accuracy of EmoDC over the baseline model with standard denoising diffusion training under 100-step evaluations. Additionally, AMDiT-enhanced EmoDC has better generalization and robustness than state-of-the-art discriminative classifiers.

Medical image segmentation faces fundamental challenges including restricted access, costly annotation, and data shortage to clinical datasets through Picture Archiving and Communication Systems (PACS). These systemic barriers significantly impede the development of robust segmentation algorithms. To address these challenges, we propose FOSCU, which integrates Duo-Diffusion, a 3D latent diffusion model with ControlNet that simultaneously generates high-resolution, anatomically realistic synthetic MRI volumes and corresponding segmentation labels, and an enhanced 3D U-Net training pipeline. Duo-Diffusion employs segmentation-conditioned diffusion to ensure spatial consistency and precise anatomical detail in the generated data. Experimental evaluation on 720 abdominal MRI scans shows that models trained with combined real and synthetic data yield a mean Dice score gain of 0.67% over those using only real data, and achieve a 36.4% reduction in Fréchet Inception Distance (FID), reflecting enhanced image fidelity.

Time series forecasting is vital across many domains, yet existing models struggle with fixed-length inputs and inadequate multi-scale modeling. We propose MR-CDM, a framework combining hierarchical multi-resolution trend decomposition, an adaptive embedding mechanism for variable-length inputs, and a multi-scale conditional diffusion process. Evaluations on four real-world datasets demonstrate that MR-CDM significantly outperforms state-of-the-art baselines (e.g., CSDI, Informer), reducing MAE and RMSE by approximately 6-10 to a certain degree.

Beam alignment is a key challenge in directional mmWave and THz systems, where narrow beams require accurate yet low-overhead training. Existing learning-based approaches typically predict a single beam and do not quantify uncertainty, limiting adaptive beam sweeping. We recast beam alignment as a generative task and propose a conditional diffusion model that learns a probabilistic beam prior from compact geometric and multipath features. The learned priors guide top-$k$ sweeps and capture the SNR loss induced by limited probing. Using a ray-traced DeepMIMO scenario with an 8-beam DFT codebook, our best conditional diffusion model achieves strong ranking performance (Hit@1 $\approx 0.61$, Hit@3 $\approx 0.90$, Hit@5 $\approx 0.97$) while preserving SNR at small sweep budgets. Compared with a deterministic classifier baseline, diffusion improves Hit@1 by about 180%. Results further highlight the importance of informative conditioning and the ability of diffusion sampling to flexibly trade accuracy for computational efficiency. The proposed diffusion framework achieves substantial improvements in small-$k$ Hit rates, translating into reduced beam training overhead and enabling low-latency, energy-efficient beam alignment for mmWave and THz systems while preserving received SNR.

Recent advances in diffusion-based controllable visual generation have led to remarkable improvements in image quality. However, these powerful models are typically deployed on cloud servers due to their large computational demands, raising serious concerns about user data privacy. To enable secure and efficient on-device generation, we explore in this paper controllable diffusion models built upon linear attention architectures, which offer superior scalability and efficiency, even on edge devices. Yet, our experiments reveal that existing controllable generation frameworks, such as ControlNet and OminiControl, either lack the flexibility to support multiple heterogeneous condition types or suffer from slow convergence on such linear-attention models. To address these limitations, we propose a novel controllable diffusion framework tailored for linear attention backbones like SANA. The core of our method lies in a unified gated conditioning module working in a dual-path pipeline, which effectively integrates multi-type conditional inputs, such as spatially aligned and non-aligned cues. Extensive experiments on multiple tasks and benchmarks demonstrate that our approach achieves state-of-the-art controllable generation performance based on linear-attention models, surpassing existing methods in terms of fidelity and controllability.

Computed tomography (CT) provides rich 3D anatomical detail but is often constrained by high radiation exposure, substantial costs, and limited availability. Standard chest X-rays are cost-effective and widely accessible, but provide only 2D projections with limited pathological information. Reconstructing 3D CT volumes from 2D X-rays could markedly increase diagnostic accessibility, yet existing methods rely predominantly on synthetic X-ray projections, limiting clinical generalization. We propose AXON, a multi-stage diffusion-based framework that reconstructs 3D CT volumes directly from real X-rays with substantially improved fidelity over existing approaches. AXON follows a coarse-to-fine paradigm: a Brownian Bridge diffusion model first captures global anatomical structure, and a ControlNet-guided refinement stage then enhances local intensity detail and anatomical realism. To alleviate the depth ambiguity inherent in 2D-to-3D reconstruction, AXON incorporates bi-planar X-ray views, enabling more accurate spatial reasoning and structural recovery. A dedicated super-resolution module further increases the spatial resolution of the generated volumes. Experiments on public and external datasets show that AXON consistently surpasses state-of-the-art approaches while generalizing across diverse clinical distributions. At our highest-resolution bi-planar setting, AXON achieves an 11.9% improvement in PSNR and an 11.0% increase in SSIM over the strongest baseline evaluated at that resolution. In the $128^3$ single-planar setting, it maintains a lead of 7.8% in PSNR on LIDC-IDRI, with larger margins on the external clinical dataset of 8.0% in PSNR and 16.9% in SSIM. Our code is available at https://github.com/ai-med/AXON/.

Generative Deep Learning is a powerful tool for modeling of the Madden-Julian oscillation (MJO) in the tropics, yet its relationship to traditional theoretical frameworks remains poorly understood. Here we propose a video diffusion model, trained on atmospheric reanalysis, to synthetize long MJO sequences conditioned on key low-dimensional metrics. The generated MJOs capture key features including composites, power spectra and multiscale structures including convectively coupled waves, despite some bias. We then prompt the model to generate more tractable MJOs based on intentionally idealized low-dimensional conditionings, for example a perpetual MJO, an isolated modulation by seasons and/or the El Nino-Southern Oscillation, and so on. This enables deconstructing the underlying processes and identifying physical drivers. The present approach provides a practical framework for bridging the gap between low-dimensional MJO theory and high-resolution atmospheric complexity and will help tropical atmosphere prediction.

Diffusion models achieve strong generative performance but often rely on classifier-free guidance (CFG), an inference-time intervention that modifies the sampling trajectory. Since standard denoising score matching (DSM) should recover the target distribution when the score is learned accurately, the practical necessity of CFG suggests deficiencies in learned conditional scores. We identify weak inter-class separation as one such limitation: samples generated from the same noise under different labels can retain similar class-agnostic structure. To address this deficiency, we introduce MCLR, a principled fine-tuning objective that explicitly maximizes inter-class likelihood-ratios, thereby strengthening class-specific structures under standard sampling. Across diverse models and datasets, MCLR substantially improves guidance-free conditional generation and narrows the gap to CFG. Theoretically, we prove that the CFG-guided score is the unique minimizer of a sample-adaptively weighted, ELBO-approximated MCLR objective, interpreting CFG as an implicit inference-time contrastive alignment procedure. We further compare MCLR with related contrastive objectives, including DPO, CCA, and CFM, clarifying their connections and key differences in an otherwise fragmented literature.

We propose closed-form conditional diffusion models for data assimilation. Diffusion models use data to learn the score function (defined as the gradient of the log-probability density of a data distribution), allowing them to generate new samples from the data distribution by reversing a noise injection process. While it is common to train neural networks to approximate the score function, we leverage the analytical tractability of the score function to assimilate the states of a system with measurements. To enable the efficient evaluation of the score function, we use kernel density estimation to model the joint distribution of the states and their corresponding measurements. The proposed approach also inherits the capability of conditional diffusion models of operating in black-box settings, i.e., the proposed data assimilation approach can accommodate systems and measurement processes without their explicit knowledge. The ability to accommodate black-box systems combined with the superior capabilities of diffusion models in approximating complex, non-Gaussian probability distributions means that the proposed approach offers advantages over many widely used filtering methods. We evaluate the proposed method on nonlinear data assimilation problems based on the Lorenz-63 and Lorenz-96 systems of moderate dimensionality and nonlinear measurement models. Results show the proposed approach outperforms the widely used ensemble Kalman and particle filters when small to moderate ensemble sizes are used.

Low-dose computed tomography (LDCT) reduces radiation exposure but also introduces substantial noise and structural degradation, making it difficult to suppress noise without erasing subtle anatomical details. In this paper, we present TAFG-MAN, a latent diffusion framework for efficient and high-quality LDCT image denoising. The framework combines a perceptually optimized autoencoder, conditional latent diffusion restoration in a compact latent space, and a lightweight Timestep-Adaptive Frequency-Gated (TAFG) conditioning design. TAFG decomposes condition features into low- and high-frequency components, predicts timestep-adaptive gates from the current denoising feature and timestep embedding, and progressively releases high-frequency guidance in later denoising stages before cross-attention. In this way, the model relies more on stable structural guidance at early reverse steps and introduces fine details more cautiously as denoising proceeds, improving the balance between noise suppression and detail preservation. Experiments show that TAFG-MAN achieves a favorable quality-efficiency trade-off against representative baselines. Compared with its base variant without TAFG, it further improves detail preservation and perceptual quality while maintaining essentially the same inference cost, and ablation results confirm the effectiveness of the proposed conditioning mechanism.

Millimeter-wave (mmWave) radar enables contactless respiratory sensing,yet fine-grained monitoring is often degraded by nonstationary interference from body micromotions.To achieve micromotion interference removal,we propose mmWave-Diffusion,an observation-anchored conditional diffusion framework that directly models the residual between radar phase observations and the respiratory ground truth,and initializes sampling within an observation-consistent neighborhood rather than from Gaussian noise-thereby aligning the generative process with the measurement physics and reducing inference overhead. The accompanying Radar Diffusion Transformer (RDT) is explicitly conditioned on phase observations, enforces strict one-to-one temporal alignment via patch-level dual positional encodings, and injects local physical priors through banded-mask multi-head cross-attention, enabling robust denoising and interference removal in just 20 reverse steps. Evaluated on 13.25 hours of synchronized radar-respiration data, mmWave-Diffusion achieves state-of-the-art waveform reconstruction and respiratory-rate estimation with strong generalization. Code repository:https://github.com/goodluckyongw/mmWave-Diffusion.

Current diffusion-based makeup transfer methods commonly use the makeup information encoded by off-the-shelf foundation models (e.g., CLIP) as condition to preserve the makeup style of reference image in the generation. Although effective, these works mainly have two limitations: (1) foundation models pre-trained for generic tasks struggle to capture makeup styles; (2) the makeup features of reference image are injected to the diffusion denoising model as a whole for global makeup transfer, overlooking the facial region-aware makeup features (i.e., eyes, mouth, etc) and limiting the regional controllability for region-specific makeup transfer. To address these, in this work, we propose Facial Region-Aware Makeup features (FRAM), which has two stages: (1) makeup CLIP fine-tuning; (2) identity and facial region-aware makeup injection. For makeup CLIP fine-tuning, unlike prior works using off-the-shelf CLIP, we synthesize annotated makeup style data using GPT-o3 and text-driven image editing model, and then use the data to train a makeup CLIP encoder through self-supervised and image-text contrastive learning. For identity and facial region-aware makeup injection, we construct before-and-after makeup image pairs from the edited images in stage 1 and then use them to learn to inject identity of source image and makeup of reference image to the diffusion denoising model for makeup transfer. Specifically, we use learnable tokens to query the makeup CLIP encoder to extract facial region-aware makeup features for makeup injection, which is learned via an attention loss to enable regional control. As for identity injection, we use a ControlNet Union to encode source image and its 3D mesh simultaneously. The experimental results verify the superiority of our regional controllability and our makeup transfer performance. Code is available at https://github.com/zaczgao/Facial_Region-Aware_Makeup.

Positron emission tomography (PET) is a widely recognized technique for diagnosing neurodegenerative diseases, offering critical functional insights. However, its high costs and radiation exposure hinder its widespread use. In contrast, magnetic resonance imaging (MRI) does not involve such limitations. While MRI also detects neurodegenerative changes, it is less sensitive for diagnosis compared to PET. To overcome such limitations, one approach is to generate synthetic PET from MRI. Recent advances in generative models have paved the way for cross-modality medical image translation; however, existing methods largely emphasize structural preservation while neglecting the critical need for pathology awareness. To address this gap, we propose PASTA, a novel image translation framework built on conditional diffusion models with enhanced pathology awareness. PASTA surpasses state-of-the-art methods by preserving both structural and pathological details through its highly interactive dual-arm architecture and multi-modal condition integration. Additionally, we introduce a novel cycle exchange consistency and volumetric generation strategy that significantly enhances PASTA's ability to produce high-quality 3D PET images. Our qualitative and quantitative results demonstrate the high quality and pathology awareness of the synthesized PET scans. For Alzheimer's diagnosis, the performance of these synthesized scans improves over MRI by 4%, almost reaching the performance of actual PET. Our code is available at https://github.com/ai-med/PASTA.

Colour is one of the most perceptually salient yet least controllable attributes in image generation. Although recent diffusion models can modify object colours from user instructions, their results often deviate from the intended hue, especially for fine-grained and local edits. Early text-driven methods rely on discrete language descriptions that cannot accurately represent continuous chromatic variations. To overcome this limitation, we propose ColourCrafter, a unified diffusion framework that transforms colour editing from global tone transfer into a structured, region-aware generation process. Unlike traditional colour driven methods, ColourCrafter performs token-level fusion of RGB colour tokens and image tokens in latent space, selectively propagating colour information to semantically relevant regions while preserving structural fidelity. A perceptual Lab-space Loss further enhances pixel-level precision by decoupling luminance and chrominance and constraining edits within masked areas. Additionally, we build ColourfulSet, a largescale dataset of high-quality image pairs with continuous and diverse colour variations. Extensive experiments demonstrate that ColourCrafter achieves state-of-the-art colour accuracy, controllability and perceptual fidelity in fine-grained colour editing. Our project is available at https://yangyuqi317.github.io/ColourCrafter.github.io/.

Predicting stress fields in hyperelastic materials with complex microstructures remains challenging for traditional deep learning surrogates, which struggle to capture both sharp stress concentrations and the wide dynamic range of stress magnitudes. Convolutional architectures such as UNet tend to oversmooth high-frequency gradients, while neural operators like DeepONet exhibit spectral bias and underpredict localized extremes. Diffusion models can recover fine-scale structure but often introduce low-frequency amplitude drift, degrading physical scaling. To address these limitations, we propose a hybrid surrogate framework, cDDPM-DeepONet, that decouples stress morphology from magnitude. A conditional denoising diffusion probabilistic model (cDDPM), built on a UNet backbone, generates normalized von Mises stress fields conditioned on geometry and loading. In parallel, a modified DeepONet predicts global scaling parameters (minimum and maximum stress), enabling reconstruction of full-resolution physical stress maps. This separation allows the diffusion model to focus on spatial structure while the operator network corrects global amplitude, mitigating spectral and scaling biases. We evaluate the framework on nonlinear hyperelastic datasets with single and multiple polygonal voids. The proposed model consistently outperforms UNet, DeepONet, and standalone cDDPM baselines by one to two orders of magnitude. Spectral analysis shows strong agreement with finite element solutions across all wavenumbers, preserving both global behavior and localized stress concentrations.

Seismic full-waveform inversion is a core technology for obtaining high-resolution subsurface model parameters. However, its highly nonlinear characteristics and strong dependence on the initial model often lead to the inversion process getting trapped in local minima. In recent years, generative diffusion models have provided a way to regularize full-waveform inversion by learning implicit prior distributions. However, existing methods mostly use unconditional diffusion processes, ignoring the inherent physical coupling relationship between velocity and density and other physical properties. This paper proposes a full-waveform inversion method based on conditional diffusion model regularization. By improving the backbone network structure of the diffusion model, two-dimensional density information is introduced as a conditional input into the U-Net network. Experimental results show that the full-waveform inversion method based on the conditional diffusion model significantly improves the resolution and structural fidelity of the inversion results, and exhibits stronger stability and robustness when dealing with complex situations. This method effectively utilizes density information to constrain the inversion and has good practical application value. Keywords: Deep learning; Diffusion model; Full waveform inversion.

Virtual-cell models aim to predict how cell populations respond to perturbations, but control and treated cells are measured as unpaired populations, complicating the learning of perturbation-specific effects. We present SCALE, a conditional transport model that represents cells as unordered sets and predicts treated populations without cell-level matching. A shared set-aware encoder and conditional DiT backbone learn latent transport, making endpoint supervision directly delta-aligned without an auxiliary delta objective. Across genetic, chemical, developmental and immune perturbations, SCALE recovered gene-expression changes, response directions and population structure. In CRISPR data with dominant cell-line effects, SCALE outperformed competing methods across seven metrics and maintained separation among gene-target representations rather than collapsing them into a shared region. SCALE further prioritized cytokines predicted to produce distinct immune activation and inflammatory responses. Experiments using matched PBMC samples from three donors confirmed these predicted differences. Together, SCALE enables perturbation-specific prediction from unpaired populations and supports experimental prioritization.

Monocular depth estimation can benefit from autoregressive (AR) generation, but direct AR modeling is hindered by the modality gap between RGB and depth, inefficient pixel-wise generation, and instability in continuous depth prediction. We propose a Fractal Visual Autoregressive Diffusion framework that reformulates depth estimation as a coarse-to-fine, next-scale autoregressive generation process. A VCFR module fuses multi-scale image features with current depth predictions to improve cross-modal conditioning, while a conditional denoising diffusion loss models depth distributions directly in continuous space and mitigates errors caused by discrete quantization. To improve computational efficiency, we organize the scale-wise generators into a fractal recursive architecture, reusing a base visual AR unit in a self-similar hierarchy. We further introduce an uncertainty-aware robust consensus aggregation scheme for multi-sample inference to improve fusion stability and provide a practical pixel-wise reliability estimate. Experiments on standard benchmarks demonstrate strong performance and validate the effectiveness of the proposed design.

The three-dimensional (3D) microstructures of polycrystalline materials exert a critical influence on their mechanical and physical properties. Realistic, controllable construction of these microstructures is a key step toward elucidating structure-property relationships, yet remains a formidable challenge. Herein, we propose PolyCrysDiff, a framework based on conditional latent diffusion that enables the end-to-end generation of computable 3D polycrystalline microstructures. Comprehensive qualitative and quantitative evaluations demonstrate that PolyCrysDiff faithfully reproduces target grain morphologies, orientation distributions, and 3D spatial correlations, while achieving an $R^2$ over 0.972 on grain attributes (e.g., size and sphericity) control, thereby outperforming mainstream approaches such as Markov random field (MRF)- and convolutional neural network (CNN)-based methods. The computability and physical validity of the generated microstructures are verified through a series of crystal plasticity finite element method (CPFEM) simulations. Leveraging PolyCrysDiff's controllable generative capability, we systematically elucidate how grain-level microstructural characteristics affect the mechanical properties of polycrystalline materials. This development is expected to pave a key step toward accelerated, data-driven optimization and design of polycrystalline materials.

We present a parameter-efficient Diffusion Transformer (DiT) for generating 200bp cell-type-specific regulatory DNA sequences. By replacing the U-Net backbone of DNA-Diffusion with a transformer denoiser equipped with a 2D CNN input encoder, our model matches the U-Net's best validation loss in 13 epochs (60$\times$ fewer) and converges 39% lower, while reducing memorization from 5.3% to 1.7% of generated sequences aligning to training data via BLAT. Ablations show the CNN encoder is essential: without it, validation loss increases 70% regardless of positional embedding choice. We further apply DDPO finetuning using Enformer as a reward model, achieving a 38$\times$ improvement in predicted regulatory activity. Cross-validation against DRAKES on an independent prediction task confirms that improvements reflect genuine regulatory signal rather than reward model overfitting.

Recent diffusion models increasingly favor Transformer backbones, motivated by the remarkable scalability of fully attentional architectures. Yet the locality bias, parameter efficiency, and hardware friendliness--the attributes that established ConvNets as the efficient vision backbone--have seen limited exploration in modern generative modeling. Here we introduce the fully convolutional diffusion model (FCDM), a model having a backbone similar to ConvNeXt, but designed for conditional diffusion modeling. We find that using only 50% of the FLOPs of DiT-XL/2, FCDM-XL achieves competitive performance with 7$\times$ and 7.5$\times$ fewer training steps at 256$\times$256 and 512$\times$512 resolutions, respectively. Remarkably, FCDM-XL can be trained on a 4-GPU system, highlighting the exceptional training efficiency of our architecture. Our results demonstrate that modern convolutional designs provide a competitive and highly efficient alternative for scaling diffusion models, reviving ConvNeXt as a simple yet powerful building block for efficient generative modeling.

Counterfeiting affects diverse industries, including pharmaceuticals, electronics, and food, posing serious health and economic risks. Printable unclonable codes, such as Copy Detection Patterns (CDPs), are widely used as an anti-counterfeiting measure and are applied to products and packaging. However, the increasing availability of high-resolution printing and scanning devices, along with advances in generative deep learning, undermines traditional authentication systems, which often fail to distinguish high-quality counterfeits from genuine prints. In this work, we propose a diffusion-based authentication framework that jointly leverages the original binary template, the printed CDP, and a representation of printer identity that captures relevant semantic information. Formulating authentication as multi-class printer classification over printer signatures lets our model capture fine-grained, device-specific features via spatial and textual conditioning. We extend ControlNet by repurposing the denoising process for class-conditioned noise prediction, enabling effective printer classification. On the Indigo 1 x 1 Base dataset, our method outperforms traditional similarity metrics and prior deep learning approaches. Results show the framework generalises to counterfeit types unseen during training.