Yichao Cai

Yichao Cai, Yuhang Liu, Zhen Zhang et al.

Contrastive vision-language models, such as CLIP, have garnered considerable attention for various downstream tasks, mainly due to the remarkable ability of the learned features for generalization. However, the features they learned often blend content and style information, which somewhat limits their generalization capabilities under distribution shifts. To address this limitation, we adopt a causal generative perspective for multimodal data and propose contrastive learning with data augmentation to disentangle content features from the original representations. To achieve this, we begin with exploring image augmentation techniques and develop a method to seamlessly integrate them into pre-trained CLIP-like models to extract pure content features. Taking a step further, recognizing the inherent semantic richness and logical structure of text data, we explore the use of text augmentation to isolate latent content from style features. This enables CLIP-like model's encoders to concentrate on latent content information, refining the learned representations by pre-trained CLIP-like models. Our extensive experiments across diverse datasets demonstrate significant improvements in zero-shot and few-shot classification tasks, alongside enhanced robustness to various perturbations. These results underscore the effectiveness of our proposed methods in refining vision-language representations and advancing the state-of-the-art in multimodal learning.

Wenkang Jiang, Yuhang Liu, Yichao Cai et al.

Single-cell perturbation modeling is fundamental for understanding and predicting cellular responses to genetic perturbations. However, existing approaches, from causal representation learning to foundation models, often struggle with an overlooked challenge: gene expression is dominated by perturbation-invariant information, while perturbation-specific signals are intrinsically sparse. As a result, learned representations either entangle invariant and perturbation-specific information, leading to spurious and non-generalizable predictors, or suppress perturbation-specific signals altogether, rendering them ineffective for prediction. To address this, we propose PerturbedVAE, a general framework designed to resolve this signal imbalance. The framework explicitly separates perturbation-specific information from dominant invariant structure and recovers causal representations to effectively utilize such information for prediction. We further provide an identifiability analysis that characterizes the conditions under which sparse perturbation effects can be reliably recovered, thereby clarifying how the framework can be concretely specified under such conditions. Empirically, PerturbedVAE achieves state-of-the-art performance on a widely used benchmark across multiple evaluation settings, yielding significant gains on out-of-distribution combinatorial predictions and uncovering interpretable perturbation-response programs.

Yichao Cai, Zhen Zhang, Yuhang Liu et al.

While InfoNCE powers modern contrastive learning, its geometric mechanisms remain under-characterized beyond the canonical alignment--uniformity decomposition. We present a measure-theoretic framework that models learning as the evolution of representation measures on a fixed embedding manifold. By establishing value and gradient consistency in the large-batch limit, we bridge the stochastic objective to explicit deterministic energy landscapes, uncovering a fundamental geometric bifurcation between the unimodal and multimodal regimes. In the unimodal setting, the intrinsic landscape is strictly convex with a unique Gibbs equilibrium; here, entropy acts merely as a tie-breaker, clarifying "uniformity" as a constrained expansion within the alignment basin. In contrast, the symmetric multimodal objective contains a persistent negative symmetric divergence term that remains even after kernel sharpening. We show that this term induces barrier-driven co-adaptation, enforcing a population-level modality gap as a structural geometric necessity rather than an initialization artifact. Our results shift the analytical lens from pointwise discrimination to population geometry, offering a principled basis for diagnosing and controlling distributional misalignment.

Yuhang Liu, Dong Gong, Yichao Cai et al.

The remarkable achievements of large language models (LLMs) have led many to conclude that they exhibit a form of intelligence. This is as opposed to explanations of their capabilities based on their ability to perform relatively simple manipulations of vast volumes of data. To illuminate the distinction between these explanations, we introduce a novel generative model that generates tokens on the basis of human-interpretable concepts represented as latent discrete variables. Under mild conditions, even when the mapping from the latent space to the observed space is non-invertible, we establish an identifiability result, i.e., the representations learned by LLMs through next-token prediction can be approximately modeled as the logarithm of the posterior probabilities of these latent discrete concepts given input context, up to an invertible linear transformation. This theoretical finding not only provides evidence that LLMs capture underlying generative factors, but also provide a unified prospective for understanding of the linear representation hypothesis. Taking this a step further, our finding motivates a reliable evaluation of sparse autoencoders by treating the performance of supervised concept extractors as an upper bound. Pushing this idea even further, it inspires a structural variant that enforces dependence among latent concepts in addition to promoting sparsity. Empirically, we validate our theoretical results through evaluations on both simulation data and the Pythia, Llama, and DeepSeek model families, and demonstrate the effectiveness of our structured sparse autoencoder.

Yichao Cai, Yuhang Liu, Erdun Gao et al.

Multimodal representation learning, exemplified by multimodal contrastive learning (MMCL) using image-text pairs, aims to learn powerful representations by aligning cues across modalities. This approach relies on the core assumption that the exemplar image-text pairs constitute two representations of an identical concept. However, recent research has revealed that real-world datasets often exhibit cross-modal misalignment. There are two distinct viewpoints on how to address this issue: one suggests mitigating the misalignment, and the other leveraging it. We seek here to reconcile these seemingly opposing perspectives, and to provide a practical guide for practitioners. Using latent variable models we thus formalize cross-modal misalignment by introducing two specific mechanisms: Selection bias, where some semantic variables are absent in the text, and perturbation bias, where semantic variables are altered -- both leading to misalignment in data pairs. Our theoretical analysis demonstrates that, under mild assumptions, the representations learned by MMCL capture exactly the information related to the subset of the semantic variables invariant to selection and perturbation biases. This provides a unified perspective for understanding misalignment. Based on this, we further offer actionable insights into how misalignment should inform the design of real-world ML systems. We validate our theoretical findings via extensive empirical studies on both synthetic data and real image-text datasets, shedding light on the nuanced impact of cross-modal misalignment on multimodal representation learning.