RNA-FM: Flow-Matching Generative Model for Genome-wide RNA-Seq PredictionYaxuan Song, Jianan Fan, Tianyi Wang et al.
Histopathology whole-slide images (WSIs) are routinely acquired in clinical practice and contain rich tissue morphology but lack direct molecular architecture and functional programs defining pathological states, whereas RNA sequencing (RNA-seq) provides genome-wide transcriptional profiles at substantial cost, thereby motivating WSI-based genome-wide transcriptomic prediction. Existing approaches for predicting gene expression from WSIs predominantly rely on deterministic regression with one-to-one mapping, limiting their ability to capture biological heterogeneity and predictive uncertainty. We propose RNA-FM, a flow-matching generative framework for genome-wide bulk RNA-seq prediction from WSIs. RNA-FM formulates transcriptomic prediction as a continuous-time conditional transport problem, learning a velocity field that maps a simple prior to the target gene expression distribution conditioned on morphologies. By integrating pathway-level structure, RNA-FM enables scalable and biologically interpretable genome-wide gene expression imputation. Extensive experiments demonstrate that RNA-FM consistently outperforms state-of-the-art approaches while maintaining biological meaningfulness. Code is available at https://github.com/YXSong000/RNA-FM.
18.2CVNov 26, 2025Code
Multi-Crit: Benchmarking Multimodal Judges on Pluralistic Criteria-FollowingTianyi Xiong, Yi Ge, Ming Li et al.
Large multimodal models (LMMs) are increasingly adopted as judges in multimodal evaluation systems due to their strong instruction following and consistency with human preferences. However, their ability to follow diverse, fine-grained evaluation criteria remains underexplored. We develop Multi-Crit, a benchmark for evaluating multimodal judges on their capacity to follow pluralistic criteria and produce reliable criterion-level judgments. Covering both open-ended generation and verifiable reasoning tasks, Multi-Crit is built through a rigorous data curation pipeline that gathers challenging response pairs with multi-criterion human annotations. It further introduces three novel metrics for systematically assessing pluralistic adherence, criterion-switching flexibility, and the ability to recognize criterion-level preference conflicts. Comprehensive analysis of 25 LMMs reveals that 1) proprietary models still struggle to maintain consistent adherence to pluralistic criteria--especially in open-ended evaluation; 2) open-source models lag further behind in flexibly following diverse criteria; and 3) critic fine-tuning with holistic judgment signals enhances visual grounding but fails to generalize to pluralistic criterion-level judgment. Additional analyses on reasoning fine-tuning, test-time scaling, and boundary consistency between open-source and proprietary models further probe the limits of current multimodal judges. As a pioneering study, Multi-Crit lays the foundation for building reliable and steerable multimodal AI evaluation.
3.7CVOct 14, 2024
Cross-Modal Few-Shot Learning: a Generative Transfer Learning FrameworkZhengwei Yang, Yuke Li, Qiang Sun et al.
Most existing studies on few-shot learning focus on unimodal settings, where models are trained to generalize to unseen data using a limited amount of labeled examples from a single modality. However, real-world data are inherently multi-modal, and such unimodal approaches limit the practical applications of few-shot learning. To bridge this gap, this paper introduces the Cross-modal Few-Shot Learning (CFSL) task, which aims to recognize instances across multiple modalities while relying on scarce labeled data. This task presents unique challenges compared to classical few-shot learning arising from the distinct visual attributes and structural disparities inherent to each modality. To tackle these challenges, we propose a Generative Transfer Learning (GTL) framework by simulating how humans abstract and generalize concepts. Specifically, the GTL jointly estimates the latent shared concept across modalities and the in-modality disturbance through a generative structure. Establishing the relationship between latent concepts and visual content among abundant unimodal data enables GTL to effectively transfer knowledge from unimodal to novel multimodal data, as humans did. Comprehensive experiments demonstrate that the GTL achieves state-of-the-art performance across seven multi-modal datasets across RGB-Sketch, RGB-Infrared, and RGB-Depth.