arXiv subjects

Taejin Jeong

Publications and source records attributed to Taejin Jeong.

5 recordsLinked to original sources

arXiv2026

Contrastive and Adaptive Multi-modal Masked Autoencoder for Spatial Transcriptomics

The high cost of spatial transcriptomics (ST) has driven extensive studies into predicting gene expression directly from H&E histology images. However, this prediction task faces an inherent limitation, as tissue morphology alone provides insufficient information to fully resolve underlying gene expression. To address this limitation, a recent study leverages partial gene expression to guide the prediction process alongside histology images. Building on this paradigm, we approach the prediction task as a spatial imputation problem, employing a Masked Autoencoder (MAE) to utilize a small fraction of gene expression as genetic anchors for inferring whole-slide gene expression profiles. Specifically, we propose a bio-saliency score and a learning-to-rank strategy to adaptively identify the most informative spots within the tissue. Based on these identified spots, our framework selects contiguous regions as genetic anchors to ensure suitability for real-world ST profiling hardware. To effectively leverage these anchors, we design a cross-modal joint encoder that integrates visual and genetic modalities. By aligning the selected anchors with their corresponding visual features via contrastive learning, the encoder generates robust joint representations to accurately predict gene expression across the whole slide. Notably, our framework consistently surpasses existing methods in both histology-only prediction and spatial imputation, achieving superior accuracy even without genetic anchors and further excelling with as little as 10% transcriptomic coverage. Our code is available at https://github.com/Kyyle2114/CAMMST.

cs.CV↗

arXiv2026

FEAST: Fully Connected Expressive Attention for Spatial Transcriptomics

Spatial Transcriptomics (ST) provides spatially-resolved gene expression, offering crucial insights into tissue architecture and complex diseases. However, its prohibitive cost limits widespread adoption, leading to significant attention on inferring spatial gene expression from readily available whole slide images. While graph neural networks have been proposed to model interactions between tissue regions, their reliance on pre-defined sparse graphs prevents them from considering potentially interacting spot pairs, resulting in a structural limitation in capturing complex biological relationships. To address this, we propose FEAST (Fully connected Expressive Attention for Spatial Transcriptomics), an attention-based framework that models the tissue as a fully connected graph, enabling the consideration of all pairwise interactions. To better reflect biological interactions, we introduce negative-aware attention, which models both excitatory and inhibitory interactions, capturing essential negative relationships that standard attention often overlooks. Furthermore, to mitigate the information loss from truncated or ignored context in standard spot image extraction, we introduce an off-grid sampling strategy that gathers additional images from intermediate regions, allowing the model to capture a richer morphological context. Experiments on public ST datasets show that FEAST surpasses state-of-the-art methods in gene expression prediction while providing biologically plausible attention maps that clarify positive and negative interactions. Our code is available at https://github.com/starforTJ/ FEAST.

cs.CV↗

arXiv2025

Rethinking Glaucoma Calibration: Voting-Based Binocular and Metadata Integration

Glaucoma is a major cause of irreversible blindness, with significant diagnostic subjectivity. This inherent uncertainty, combined with the overconfidence of models optimized solely for accuracy can lead to fatal issues such as overdiagnosis or missing critical diseases. To ensure clinical trust, model calibration is essential for reliable predictions, yet study in this field remains limited. Existing calibration study have overlooked glaucoma's systemic associations and high diagnostic subjectivity. To overcome these limitations, we propose V-ViT (Voting-based ViT), a framework that enhances calibration by integrating a patient's binocular information and metadata. Furthermore, to mitigate diagnostic subjectivity, V-ViT utilizes an iterative dropout-based Voting System to maximize calibration performance. The proposed framework achieved state-of-the-art performance across all metrics, including the primary calibration metrics. Our results demonstrate that V-ViT effectively resolves the issue of overconfidence in predictions in glaucoma diagnosis, providing highly reliable predictions for clinical use. Our source code is available at https://github.com/starforTJ/V-ViT.

eess.IV↗

arXiv2024

DragText: Rethinking Text Embedding in Point-based Image Editing

Point-based image editing enables accurate and flexible control through content dragging. However, the role of text embedding during the editing process has not been thoroughly investigated. A significant aspect that remains unexplored is the interaction between text and image embeddings. During the progressive editing in a diffusion model, the text embedding remains constant. As the image embedding increasingly diverges from its initial state, the discrepancy between the image and text embeddings presents a significant challenge. In this study, we found that the text prompt significantly influences the dragging process, particularly in maintaining content integrity and achieving the desired manipulation. Upon these insights, we propose DragText, which optimizes text embedding in conjunction with the dragging process to pair with the modified image embedding. Simultaneously, we regularize the text optimization process to preserve the integrity of the original text prompt. Our approach can be seamlessly integrated with existing diffusion-based drag methods, enhancing performance with only a few lines of code.

cs.CV↗

arXiv2024

Brain-Streams: fMRI-to-Image Reconstruction with Multi-modal Guidance

Understanding how humans process visual information is one of the crucial steps for unraveling the underlying mechanism of brain activity. Recently, this curiosity has motivated the fMRI-to-image reconstruction task; given the fMRI data from visual stimuli, it aims to reconstruct the corresponding visual stimuli. Surprisingly, leveraging powerful generative models such as the Latent Diffusion Model (LDM) has shown promising results in reconstructing complex visual stimuli such as high-resolution natural images from vision datasets. Despite the impressive structural fidelity of these reconstructions, they often lack details of small objects, ambiguous shapes, and semantic nuances. Consequently, the incorporation of additional semantic knowledge, beyond mere visuals, becomes imperative. In light of this, we exploit how modern LDMs effectively incorporate multi-modal guidance (text guidance, visual guidance, and image layout) for structurally and semantically plausible image generations. Specifically, inspired by the two-streams hypothesis suggesting that perceptual and semantic information are processed in different brain regions, our framework, Brain-Streams, maps fMRI signals from these brain regions to appropriate embeddings. That is, by extracting textual guidance from semantic information regions and visual guidance from perceptual information regions, Brain-Streams provides accurate multi-modal guidance to LDMs. We validate the reconstruction ability of Brain-Streams both quantitatively and qualitatively on a real fMRI dataset comprising natural image stimuli and fMRI data.

cs.CV↗