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Apr 17

A Comprehensive Survey on Pretrained Foundation Models: A History from BERT to ChatGPT

Pretrained Foundation Models (PFMs) are regarded as the foundation for various downstream tasks with different data modalities. A PFM (e.g., BERT, ChatGPT, and GPT-4) is trained on large-scale data which provides a reasonable parameter initialization for a wide range of downstream applications. BERT learns bidirectional encoder representations from Transformers, which are trained on large datasets as contextual language models. Similarly, the generative pretrained transformer (GPT) method employs Transformers as the feature extractor and is trained using an autoregressive paradigm on large datasets. Recently, ChatGPT shows promising success on large language models, which applies an autoregressive language model with zero shot or few shot prompting. The remarkable achievements of PFM have brought significant breakthroughs to various fields of AI. Numerous studies have proposed different methods, raising the demand for an updated survey. This study provides a comprehensive review of recent research advancements, challenges, and opportunities for PFMs in text, image, graph, as well as other data modalities. The review covers the basic components and existing pretraining methods used in natural language processing, computer vision, and graph learning. Additionally, it explores advanced PFMs used for different data modalities and unified PFMs that consider data quality and quantity. The review also discusses research related to the fundamentals of PFMs, such as model efficiency and compression, security, and privacy. Finally, the study provides key implications, future research directions, challenges, and open problems in the field of PFMs. Overall, this survey aims to shed light on the research of the PFMs on scalability, security, logical reasoning ability, cross-domain learning ability, and the user-friendly interactive ability for artificial general intelligence.

  • 19 authors
·
Feb 18, 2023

Foundation Models in Robotics: Applications, Challenges, and the Future

We survey applications of pretrained foundation models in robotics. Traditional deep learning models in robotics are trained on small datasets tailored for specific tasks, which limits their adaptability across diverse applications. In contrast, foundation models pretrained on internet-scale data appear to have superior generalization capabilities, and in some instances display an emergent ability to find zero-shot solutions to problems that are not present in the training data. Foundation models may hold the potential to enhance various components of the robot autonomy stack, from perception to decision-making and control. For example, large language models can generate code or provide common sense reasoning, while vision-language models enable open-vocabulary visual recognition. However, significant open research challenges remain, particularly around the scarcity of robot-relevant training data, safety guarantees and uncertainty quantification, and real-time execution. In this survey, we study recent papers that have used or built foundation models to solve robotics problems. We explore how foundation models contribute to improving robot capabilities in the domains of perception, decision-making, and control. We discuss the challenges hindering the adoption of foundation models in robot autonomy and provide opportunities and potential pathways for future advancements. The GitHub project corresponding to this paper (Preliminary release. We are committed to further enhancing and updating this work to ensure its quality and relevance) can be found here: https://github.com/robotics-survey/Awesome-Robotics-Foundation-Models

  • 15 authors
·
Dec 12, 2023

CoCa: Contrastive Captioners are Image-Text Foundation Models

Exploring large-scale pretrained foundation models is of significant interest in computer vision because these models can be quickly transferred to many downstream tasks. This paper presents Contrastive Captioner (CoCa), a minimalist design to pretrain an image-text encoder-decoder foundation model jointly with contrastive loss and captioning loss, thereby subsuming model capabilities from contrastive approaches like CLIP and generative methods like SimVLM. In contrast to standard encoder-decoder transformers where all decoder layers attend to encoder outputs, CoCa omits cross-attention in the first half of decoder layers to encode unimodal text representations, and cascades the remaining decoder layers which cross-attend to the image encoder for multimodal image-text representations. We apply a contrastive loss between unimodal image and text embeddings, in addition to a captioning loss on the multimodal decoder outputs which predicts text tokens autoregressively. By sharing the same computational graph, the two training objectives are computed efficiently with minimal overhead. CoCa is pretrained end-to-end and from scratch on both web-scale alt-text data and annotated images by treating all labels simply as text, seamlessly unifying natural language supervision for representation learning. Empirically, CoCa achieves state-of-the-art performance with zero-shot transfer or minimal task-specific adaptation on a broad range of downstream tasks, spanning visual recognition (ImageNet, Kinetics-400/600/700, Moments-in-Time), crossmodal retrieval (MSCOCO, Flickr30K, MSR-VTT), multimodal understanding (VQA, SNLI-VE, NLVR2), and image captioning (MSCOCO, NoCaps). Notably on ImageNet classification, CoCa obtains 86.3% zero-shot top-1 accuracy, 90.6% with a frozen encoder and learned classification head, and new state-of-the-art 91.0% top-1 accuracy on ImageNet with a finetuned encoder.

  • 6 authors
·
May 4, 2022 1

PIG-Nav: Key Insights for Pretrained Image Goal Navigation Models

Recent studies have explored pretrained (foundation) models for vision-based robotic navigation, aiming to achieve generalizable navigation and positive transfer across diverse environments while enhancing zero-shot performance in unseen settings. In this work, we introduce PIG-Nav (Pretrained Image-Goal Navigation), a new approach that further investigates pretraining strategies for vision-based navigation models and contributes in two key areas. Model-wise, we identify two critical design choices that consistently improve the performance of pretrained navigation models: (1) integrating an early-fusion network structure to combine visual observations and goal images via appropriately pretrained Vision Transformer (ViT) image encoder, and (2) introducing suitable auxiliary tasks to enhance global navigation representation learning, thus further improving navigation performance. Dataset-wise, we propose a novel data preprocessing pipeline for efficiently labeling large-scale game video datasets for navigation model training. We demonstrate that augmenting existing open navigation datasets with diverse gameplay videos improves model performance. Our model achieves an average improvement of 22.6% in zero-shot settings and a 37.5% improvement in fine-tuning settings over existing visual navigation foundation models in two complex simulated environments and one real-world environment. These results advance the state-of-the-art in pretrained image-goal navigation models. Notably, our model maintains competitive performance while requiring significantly less fine-tuning data, highlighting its potential for real-world deployment with minimal labeled supervision.

  • 17 authors
·
Jul 23, 2025

CellVTA: Enhancing Vision Foundation Models for Accurate Cell Segmentation and Classification

Cell instance segmentation is a fundamental task in digital pathology with broad clinical applications. Recently, vision foundation models, which are predominantly based on Vision Transformers (ViTs), have achieved remarkable success in pathology image analysis. However, their improvements in cell instance segmentation remain limited. A key challenge arises from the tokenization process in ViTs, which substantially reduces the spatial resolution of input images, leading to suboptimal segmentation quality, especially for small and densely packed cells. To address this problem, we propose CellVTA (Cell Vision Transformer with Adapter), a novel method that improves the performance of vision foundation models for cell instance segmentation by incorporating a CNN-based adapter module. This adapter extracts high-resolution spatial information from input images and injects it into the ViT through a cross-attention mechanism. Our method preserves the core architecture of ViT, ensuring seamless integration with pretrained foundation models. Extensive experiments show that CellVTA achieves 0.538 mPQ on the CoNIC dataset and 0.506 mPQ on the PanNuke dataset, which significantly outperforms the state-of-the-art cell segmentation methods. Ablation studies confirm the superiority of our approach over other fine-tuning strategies, including decoder-only fine-tuning and full fine-tuning. Our code and models are publicly available at https://github.com/JieZheng-ShanghaiTech/CellVTA.

  • 4 authors
·
Apr 1, 2025

To Cool or not to Cool? Temperature Network Meets Large Foundation Models via DRO

The temperature parameter plays a profound role during training and/or inference with large foundation models (LFMs) such as large language models (LLMs) and CLIP models. Particularly, it adjusts the logits in the softmax function in LLMs, which is crucial for next token generation, and it scales the similarities in the contrastive loss for training CLIP models. A significant question remains: Is it viable to learn a neural network to predict a personalized temperature of any input data for enhancing LFMs"? In this paper, we present a principled framework for learning a small yet generalizable temperature prediction network (TempNet) to improve LFMs. Our solution is composed of a novel learning framework with a robust loss underpinned by constrained distributionally robust optimization (DRO), and a properly designed TempNet with theoretical inspiration. TempNet can be trained together with a large foundation model from scratch or learned separately given a pretrained foundation model. It is not only useful for predicting personalized temperature to promote the training of LFMs but also generalizable and transferable to new tasks. Our experiments on LLMs and CLIP models demonstrate that TempNet greatly improves the performance of existing solutions or models, e.g. Table 1. The code to reproduce the experimental results in this paper can be found at https://github.com/zhqiu/TempNet.

  • 6 authors
·
Apr 6, 2024

BiPFT: Binary Pre-trained Foundation Transformer with Low-rank Estimation of Binarization Residual Polynomials

Pretrained foundation models offer substantial benefits for a wide range of downstream tasks, which can be one of the most potential techniques to access artificial general intelligence. However, scaling up foundation transformers for maximal task-agnostic knowledge has brought about computational challenges, especially on resource-limited devices such as mobiles. This work proposes the first Binary Pretrained Foundation Transformer (BiPFT) for natural language understanding (NLU) tasks, which remarkably saves 56 times operations and 28 times memory. In contrast to previous task-specific binary transformers, BiPFT exhibits a substantial enhancement in the learning capabilities of binary neural networks (BNNs), promoting BNNs into the era of pre-training. Benefiting from extensive pretraining data, we further propose a data-driven binarization method. Specifically, we first analyze the binarization error in self-attention operations and derive the polynomials of binarization error. To simulate full-precision self-attention, we define binarization error as binarization residual polynomials, and then introduce low-rank estimators to model these polynomials. Extensive experiments validate the effectiveness of BiPFTs, surpassing task-specific baseline by 15.4% average performance on the GLUE benchmark. BiPFT also demonstrates improved robustness to hyperparameter changes, improved optimization efficiency, and reduced reliance on downstream distillation, which consequently generalize on various NLU tasks and simplify the downstream pipeline of BNNs. Our code and pretrained models are publicly available at https://github.com/Xingrun-Xing/BiPFT.

  • 7 authors
·
Dec 14, 2023

Large language models for artificial general intelligence (AGI): A survey of foundational principles and approaches

Generative artificial intelligence (AI) systems based on large-scale pretrained foundation models (PFMs) such as vision-language models, large language models (LLMs), diffusion models and vision-language-action (VLA) models have demonstrated the ability to solve complex and truly non-trivial AI problems in a wide variety of domains and contexts. Multimodal large language models (MLLMs), in particular, learn from vast and diverse data sources, allowing rich and nuanced representations of the world and, thereby, providing extensive capabilities, including the ability to reason, engage in meaningful dialog; collaborate with humans and other agents to jointly solve complex problems; and understand social and emotional aspects of humans. Despite this impressive feat, the cognitive abilities of state-of-the-art LLMs trained on large-scale datasets are still superficial and brittle. Consequently, generic LLMs are severely limited in their generalist capabilities. A number of foundational problems -- embodiment, symbol grounding, causality and memory -- are required to be addressed for LLMs to attain human-level general intelligence. These concepts are more aligned with human cognition and provide LLMs with inherent human-like cognitive properties that support the realization of physically-plausible, semantically meaningful, flexible and more generalizable knowledge and intelligence. In this work, we discuss the aforementioned foundational issues and survey state-of-the art approaches for implementing these concepts in LLMs. Specifically, we discuss how the principles of embodiment, symbol grounding, causality and memory can be leveraged toward the attainment of artificial general intelligence (AGI) in an organic manner.

  • 2 authors
·
Jan 6, 2025

Complementary Subspace Low-Rank Adaptation of Vision-Language Models for Few-Shot Classification

Vision language model (VLM) has been designed for large scale image-text alignment as a pretrained foundation model. For downstream few shot classification tasks, parameter efficient fine-tuning (PEFT) VLM has gained much popularity in the computer vision community. PEFT methods like prompt tuning and linear adapter have been studied for fine-tuning VLM while low rank adaptation (LoRA) algorithm has rarely been considered for few shot fine-tuning VLM. The main obstacle to use LoRA for few shot fine-tuning is the catastrophic forgetting problem. Because the visual language alignment knowledge is important for the generality in few shot learning, whereas low rank adaptation interferes with the most informative direction of the pretrained weight matrix. We propose the complementary subspace low rank adaptation (Comp-LoRA) method to regularize the catastrophic forgetting problem in few shot VLM finetuning. In detail, we optimize the low rank matrix in the complementary subspace, thus preserving the general vision language alignment ability of VLM when learning the novel few shot information. We conduct comparison experiments of the proposed Comp-LoRA method and other PEFT methods on fine-tuning VLM for few shot classification. And we also present the suppression on the catastrophic forgetting problem of our proposed method against directly applying LoRA to VLM. The results show that the proposed method surpasses the baseline method by about +1.0\% Top-1 accuracy and preserves the VLM zero-shot performance over the baseline method by about +1.3\% Top-1 accuracy.

  • 6 authors
·
Jan 24, 2025

Covo-Audio Technical Report

In this work, we present Covo-Audio, a 7B-parameter end-to-end LALM that directly processes continuous audio inputs and generates audio outputs within a single unified architecture. Through large-scale curated pretraining and targeted post-training, Covo-Audio achieves state-of-the-art or competitive performance among models of comparable scale across a broad spectrum of tasks, including speech-text modeling, spoken dialogue, speech understanding, audio understanding, and full-duplex voice interaction. Extensive evaluations demonstrate that the pretrained foundation model exhibits strong speech-text comprehension and semantic reasoning capabilities on multiple benchmarks, outperforming representative open-source models of comparable scale. Furthermore, Covo-Audio-Chat, the dialogue-oriented variant, demonstrates strong spoken conversational abilities, including understanding, contextual reasoning, instruction following, and generating contextually appropriate and empathetic responses, validating its applicability to real-world conversational assistant scenarios. Covo-Audio-Chat-FD, the evolved full-duplex model, achieves substantially superior performance on both spoken dialogue capabilities and full-duplex interaction behaviors, demonstrating its competence in practical robustness. To mitigate the high cost of deploying end-to-end LALMs for natural conversational systems, we propose an intelligence-speaker decoupling strategy that separates dialogue intelligence from voice rendering, enabling flexible voice customization with minimal text-to-speech (TTS) data while preserving dialogue performance. Overall, our results highlight the strong potential of 7B-scale models to integrate sophisticated audio intelligence with high-level semantic reasoning, and suggest a scalable path toward more capable and versatile LALMs.

tencent Tencent
·
Feb 10 1

ForAug: Recombining Foregrounds and Backgrounds to Improve Vision Transformer Training with Bias Mitigation

Transformers, particularly Vision Transformers (ViTs), have achieved state-of-the-art performance in large-scale image classification. However, they often require large amounts of data and can exhibit biases that limit their robustness and generalizability. This paper introduces ForAug, a novel data augmentation scheme that addresses these challenges and explicitly includes inductive biases, which commonly are part of the neural network architecture, into the training data. ForAug is constructed by using pretrained foundation models to separate and recombine foreground objects with different backgrounds, enabling fine-grained control over image composition during training. It thus increases the data diversity and effective number of training samples. We demonstrate that training on ForNet, the application of ForAug to ImageNet, significantly improves the accuracy of ViTs and other architectures by up to 4.5 percentage points (p.p.) on ImageNet and 7.3 p.p. on downstream tasks. Importantly, ForAug enables novel ways of analyzing model behavior and quantifying biases. Namely, we introduce metrics for background robustness, foreground focus, center bias, and size bias and show that training on ForNet substantially reduces these biases compared to training on ImageNet. In summary, ForAug provides a valuable tool for analyzing and mitigating biases, enabling the development of more robust and reliable computer vision models. Our code and dataset are publicly available at https://github.com/tobna/ForAug.

  • 5 authors
·
Mar 12, 2025

DreamNav: A Trajectory-Based Imaginative Framework for Zero-Shot Vision-and-Language Navigation

Vision-and-Language Navigation in Continuous Environments (VLN-CE), which links language instructions to perception and control in the real world, is a core capability of embodied robots. Recently, large-scale pretrained foundation models have been leveraged as shared priors for perception, reasoning, and action, enabling zero-shot VLN without task-specific training. However, existing zero-shot VLN methods depend on costly perception and passive scene understanding, collapsing control to point-level choices. As a result, they are expensive to deploy, misaligned in action semantics, and short-sighted in planning. To address these issues, we present DreamNav that focuses on the following three aspects: (1) for reducing sensory cost, our EgoView Corrector aligns viewpoints and stabilizes egocentric perception; (2) instead of point-level actions, our Trajectory Predictor favors global trajectory-level planning to better align with instruction semantics; and (3) to enable anticipatory and long-horizon planning, we propose an Imagination Predictor to endow the agent with proactive thinking capability. On VLN-CE and real-world tests, DreamNav sets a new zero-shot state-of-the-art (SOTA), outperforming the strongest egocentric baseline with extra information by up to 7.49\% and 18.15\% in terms of SR and SPL metrics. To our knowledge, this is the first zero-shot VLN method to unify trajectory-level planning and active imagination while using only egocentric inputs.

  • 9 authors
·
Sep 14, 2025

OpenSDI: Spotting Diffusion-Generated Images in the Open World

This paper identifies OpenSDI, a challenge for spotting diffusion-generated images in open-world settings. In response to this challenge, we define a new benchmark, the OpenSDI dataset (OpenSDID), which stands out from existing datasets due to its diverse use of large vision-language models that simulate open-world diffusion-based manipulations. Another outstanding feature of OpenSDID is its inclusion of both detection and localization tasks for images manipulated globally and locally by diffusion models. To address the OpenSDI challenge, we propose a Synergizing Pretrained Models (SPM) scheme to build up a mixture of foundation models. This approach exploits a collaboration mechanism with multiple pretrained foundation models to enhance generalization in the OpenSDI context, moving beyond traditional training by synergizing multiple pretrained models through prompting and attending strategies. Building on this scheme, we introduce MaskCLIP, an SPM-based model that aligns Contrastive Language-Image Pre-Training (CLIP) with Masked Autoencoder (MAE). Extensive evaluations on OpenSDID show that MaskCLIP significantly outperforms current state-of-the-art methods for the OpenSDI challenge, achieving remarkable relative improvements of 14.23% in IoU (14.11% in F1) and 2.05% in accuracy (2.38% in F1) compared to the second-best model in localization and detection tasks, respectively. Our dataset and code are available at https://github.com/iamwangyabin/OpenSDI.

  • 3 authors
·
Mar 25, 2025

StereoSync: Spatially-Aware Stereo Audio Generation from Video

Although audio generation has been widely studied over recent years, video-aligned audio generation still remains a relatively unexplored frontier. To address this gap, we introduce StereoSync, a novel and efficient model designed to generate audio that is both temporally synchronized with a reference video and spatially aligned with its visual context. Moreover, StereoSync also achieves efficiency by leveraging pretrained foundation models, reducing the need for extensive training while maintaining high-quality synthesis. Unlike existing methods that primarily focus on temporal synchronization, StereoSync introduces a significant advancement by incorporating spatial awareness into video-aligned audio generation. Indeed, given an input video, our approach extracts spatial cues from depth maps and bounding boxes, using them as cross-attention conditioning in a diffusion-based audio generation model. Such an approach allows StereoSync to go beyond simple synchronization, producing stereo audio that dynamically adapts to the spatial structure and movement of a video scene. We evaluate StereoSync on Walking The Maps, a curated dataset comprising videos from video games that feature animated characters walking through diverse environments. Experimental results demonstrate the ability of StereoSync to achieve both temporal and spatial alignment, advancing the state of the art in video-to-audio generation and resulting in a significantly more immersive and realistic audio experience.

  • 6 authors
·
Oct 7, 2025

Neural Foundations of Mental Simulation: Future Prediction of Latent Representations on Dynamic Scenes

Humans and animals have a rich and flexible understanding of the physical world, which enables them to infer the underlying dynamical trajectories of objects and events, plausible future states, and use that to plan and anticipate the consequences of actions. However, the neural mechanisms underlying these computations are unclear. We combine a goal-driven modeling approach with dense neurophysiological data and high-throughput human behavioral readouts to directly impinge on this question. Specifically, we construct and evaluate several classes of sensory-cognitive networks to predict the future state of rich, ethologically-relevant environments, ranging from self-supervised end-to-end models with pixel-wise or object-centric objectives, to models that future predict in the latent space of purely static image-based or dynamic video-based pretrained foundation models. We find strong differentiation across these model classes in their ability to predict neural and behavioral data both within and across diverse environments. In particular, we find that neural responses are currently best predicted by models trained to predict the future state of their environment in the latent space of pretrained foundation models optimized for dynamic scenes in a self-supervised manner. Notably, models that future predict in the latent space of video foundation models that are optimized to support a diverse range of sensorimotor tasks, reasonably match both human behavioral error patterns and neural dynamics across all environmental scenarios that we were able to test. Overall, these findings suggest that the neural mechanisms and behaviors of primate mental simulation are thus far most consistent with being optimized to future predict on dynamic, reusable visual representations that are useful for embodied AI more generally.

  • 4 authors
·
May 19, 2023

MedSAM-CA: A CNN-Augmented ViT with Attention-Enhanced Multi-Scale Fusion for Medical Image Segmentation

Medical image segmentation plays a crucial role in clinical diagnosis and treatment planning, where accurate boundary delineation is essential for precise lesion localization, organ identification, and quantitative assessment. In recent years, deep learning-based methods have significantly advanced segmentation accuracy. However, two major challenges remain. First, the performance of these methods heavily relies on large-scale annotated datasets, which are often difficult to obtain in medical scenarios due to privacy concerns and high annotation costs. Second, clinically challenging scenarios, such as low contrast in certain imaging modalities and blurry lesion boundaries caused by malignancy, still pose obstacles to precise segmentation. To address these challenges, we propose MedSAM-CA, an architecture-level fine-tuning approach that mitigates reliance on extensive manual annotations by adapting the pretrained foundation model, Medical Segment Anything (MedSAM). MedSAM-CA introduces two key components: the Convolutional Attention-Enhanced Boundary Refinement Network (CBR-Net) and the Attention-Enhanced Feature Fusion Block (Atte-FFB). CBR-Net operates in parallel with the MedSAM encoder to recover boundary information potentially overlooked by long-range attention mechanisms, leveraging hierarchical convolutional processing. Atte-FFB, embedded in the MedSAM decoder, fuses multi-level fine-grained features from skip connections in CBR-Net with global representations upsampled within the decoder to enhance boundary delineation accuracy. Experiments on publicly available datasets covering dermoscopy, CT, and MRI imaging modalities validate the effectiveness of MedSAM-CA. On dermoscopy dataset, MedSAM-CA achieves 94.43% Dice with only 2% of full training data, reaching 97.25% of full-data training performance, demonstrating strong effectiveness in low-resource clinical settings.

  • 4 authors
·
Jun 30, 2025

Improving Visual Object Tracking through Visual Prompting

Learning a discriminative model to distinguish a target from its surrounding distractors is essential to generic visual object tracking. Dynamic target representation adaptation against distractors is challenging due to the limited discriminative capabilities of prevailing trackers. We present a new visual Prompting mechanism for generic Visual Object Tracking (PiVOT) to address this issue. PiVOT proposes a prompt generation network with the pre-trained foundation model CLIP to automatically generate and refine visual prompts, enabling the transfer of foundation model knowledge for tracking. While CLIP offers broad category-level knowledge, the tracker, trained on instance-specific data, excels at recognizing unique object instances. Thus, PiVOT first compiles a visual prompt highlighting potential target locations. To transfer the knowledge of CLIP to the tracker, PiVOT leverages CLIP to refine the visual prompt based on the similarities between candidate objects and the reference templates across potential targets. Once the visual prompt is refined, it can better highlight potential target locations, thereby reducing irrelevant prompt information. With the proposed prompting mechanism, the tracker can generate improved instance-aware feature maps through the guidance of the visual prompt, thus effectively reducing distractors. The proposed method does not involve CLIP during training, thereby keeping the same training complexity and preserving the generalization capability of the pretrained foundation model. Extensive experiments across multiple benchmarks indicate that PiVOT, using the proposed prompting method can suppress distracting objects and enhance the tracker.

ResidualViT for Efficient Temporally Dense Video Encoding

Several video understanding tasks, such as natural language temporal video grounding, temporal activity localization, and audio description generation, require "temporally dense" reasoning over frames sampled at high temporal resolution. However, computing frame-level features for these tasks is computationally expensive given the temporal resolution requirements. In this paper, we make three contributions to reduce the cost of computing features for temporally dense tasks. First, we introduce a vision transformer (ViT) architecture, dubbed ResidualViT, that leverages the large temporal redundancy in videos to efficiently compute temporally dense frame-level features. Our architecture incorporates (i) learnable residual connections that ensure temporal consistency across consecutive frames and (ii) a token reduction module that enhances processing speed by selectively discarding temporally redundant information while reusing weights of a pretrained foundation model. Second, we propose a lightweight distillation strategy to approximate the frame-level features of the original foundation model. Finally, we evaluate our approach across four tasks and five datasets, in both zero-shot and fully supervised settings, demonstrating significant reductions in computational cost (up to 60%) and improvements in inference speed (up to 2.5x faster), all while closely approximating the accuracy of the original foundation model.

  • 5 authors
·
Sep 16, 2025

Representation Entanglement for Generation:Training Diffusion Transformers Is Much Easier Than You Think

REPA and its variants effectively mitigate training challenges in diffusion models by incorporating external visual representations from pretrained models, through alignment between the noisy hidden projections of denoising networks and foundational clean image representations. We argue that the external alignment, which is absent during the entire denoising inference process, falls short of fully harnessing the potential of discriminative representations. In this work, we propose a straightforward method called Representation Entanglement for Generation (REG), which entangles low-level image latents with a single high-level class token from pretrained foundation models for denoising. REG acquires the capability to produce coherent image-class pairs directly from pure noise, substantially improving both generation quality and training efficiency. This is accomplished with negligible additional inference overhead, requiring only one single additional token for denoising (<0.5\% increase in FLOPs and latency). The inference process concurrently reconstructs both image latents and their corresponding global semantics, where the acquired semantic knowledge actively guides and enhances the image generation process. On ImageNet 256times256, SiT-XL/2 + REG demonstrates remarkable convergence acceleration, achieving 63times and 23times faster training than SiT-XL/2 and SiT-XL/2 + REPA, respectively. More impressively, SiT-L/2 + REG trained for merely 400K iterations outperforms SiT-XL/2 + REPA trained for 4M iterations (10times longer). Code is available at: https://github.com/Martinser/REG.

  • 12 authors
·
Jul 2, 2025

Adapting Vision Foundation Models for Robust Cloud Segmentation in Remote Sensing Images

Cloud segmentation is a critical challenge in remote sensing image interpretation, as its accuracy directly impacts the effectiveness of subsequent data processing and analysis. Recently, vision foundation models (VFM) have demonstrated powerful generalization capabilities across various visual tasks. In this paper, we present a parameter-efficient adaptive approach, termed Cloud-Adapter, designed to enhance the accuracy and robustness of cloud segmentation. Our method leverages a VFM pretrained on general domain data, which remains frozen, eliminating the need for additional training. Cloud-Adapter incorporates a lightweight spatial perception module that initially utilizes a convolutional neural network (ConvNet) to extract dense spatial representations. These multi-scale features are then aggregated and serve as contextual inputs to an adapting module, which modulates the frozen transformer layers within the VFM. Experimental results demonstrate that the Cloud-Adapter approach, utilizing only 0.6% of the trainable parameters of the frozen backbone, achieves substantial performance gains. Cloud-Adapter consistently attains state-of-the-art (SOTA) performance across a wide variety of cloud segmentation datasets from multiple satellite sources, sensor series, data processing levels, land cover scenarios, and annotation granularities. We have released the source code and pretrained models at https://github.com/XavierJiezou/Cloud-Adapter to support further research.

  • 8 authors
·
Nov 20, 2024 2

Finetuning a Weather Foundation Model with Lightweight Decoders for Unseen Physical Processes

Recent advances in AI weather forecasting have led to the emergence of so-called "foundation models", typically defined by expensive pretraining and minimal fine-tuning for downstream tasks. However, in the natural sciences, a desirable foundation model should also encode meaningful statistical relationships between the underlying physical variables. This study evaluates the performance of the state-of-the-art Aurora foundation model in predicting hydrological variables, which were not considered during pretraining. We introduce a lightweight approach using shallow decoders trained on the latent representations of the pretrained model to predict these new variables. As a baseline, we compare this to fine-tuning the full model, which allows further optimization of the latent space while incorporating new variables into both inputs and outputs. The decoder-based approach requires 50% less training time and 35% less memory, while achieving strong accuracy across various hydrological variables and preserving desirable properties of the foundation model, such as autoregressive stability. Notably, decoder accuracy depends on the physical correlation between the new variables and those used during pretraining, indicating that Aurora's latent space captures meaningful physical relationships. In this sense, we argue that an important quality metric for foundation models in Earth sciences is their ability to be extended to new variables without a full fine-tuning. This provides a new perspective for making foundation models more accessible to communities with limited computational resources, while supporting broader adoption in Earth sciences.

  • 6 authors
·
Jun 23, 2025

EHRSHOT: An EHR Benchmark for Few-Shot Evaluation of Foundation Models

While the general machine learning (ML) community has benefited from public datasets, tasks, and models, the progress of ML in healthcare has been hampered by a lack of such shared assets. The success of foundation models creates new challenges for healthcare ML by requiring access to shared pretrained models to validate performance benefits. We help address these challenges through three contributions. First, we publish a new dataset, EHRSHOT, which contains deidentified structured data from the electronic health records (EHRs) of 6,739 patients from Stanford Medicine. Unlike MIMIC-III/IV and other popular EHR datasets, EHRSHOT is longitudinal and not restricted to ICU/ED patients. Second, we publish the weights of CLMBR-T-base, a 141M parameter clinical foundation model pretrained on the structured EHR data of 2.57M patients. We are one of the first to fully release such a model for coded EHR data; in contrast, most prior models released for clinical data (e.g. GatorTron, ClinicalBERT) only work with unstructured text and cannot process the rich, structured data within an EHR. We provide an end-to-end pipeline for the community to validate and build upon its performance. Third, we define 15 few-shot clinical prediction tasks, enabling evaluation of foundation models on benefits such as sample efficiency and task adaptation. Our model and dataset are available via a research data use agreement from the Stanford AIMI Center. Code to reproduce our results are available at our Github repo: https://github.com/som-shahlab/ehrshot-benchmark

  • 5 authors
·
Jul 5, 2023

Repulsor: Accelerating Generative Modeling with a Contrastive Memory Bank

The dominance of denoising generative models (e.g., diffusion, flow-matching) in visual synthesis is tempered by their substantial training costs and inefficiencies in representation learning. While injecting discriminative representations via auxiliary alignment has proven effective, this approach still faces key limitations: the reliance on external, pre-trained encoders introduces overhead and domain shift. A dispersed-based strategy that encourages strong separation among in-batch latent representations alleviates this specific dependency. To assess the effect of the number of negative samples in generative modeling, we propose {\mname}, a plug-and-play training framework that requires no external encoders. Our method integrates a memory bank mechanism that maintains a large, dynamically updated queue of negative samples across training iterations. This decouples the number of negatives from the mini-batch size, providing abundant and high-quality negatives for a contrastive objective without a multiplicative increase in computational cost. A low-dimensional projection head is used to further minimize memory and bandwidth overhead. {\mname} offers three principal advantages: (1) it is self-contained, eliminating dependency on pretrained vision foundation models and their associated forward-pass overhead; (2) it introduces no additional parameters or computational cost during inference; and (3) it enables substantially faster convergence, achieving superior generative quality more efficiently. On ImageNet-256, {\mname} achieves a state-of-the-art FID of 2.40 within 400k steps, significantly outperforming comparable methods.

  • 10 authors
·
Dec 9, 2025

Spatial Forcing: Implicit Spatial Representation Alignment for Vision-language-action Model

Vision-language-action (VLA) models have recently shown strong potential in enabling robots to follow language instructions and execute precise actions. However, most VLAs are built upon vision-language models pretrained solely on 2D data, which lack accurate spatial awareness and hinder their ability to operate in the 3D physical world. Existing solutions attempt to incorporate explicit 3D sensor inputs such as depth maps or point clouds, but these approaches face challenges due to sensor noise, hardware heterogeneity, and incomplete depth coverage in existing datasets. Alternative methods that estimate 3D cues from 2D images also suffer from the limited performance of depth estimators.We propose Spatial Forcing (SF), a simple yet effective alignment strategy that implicitly forces VLA models to develop spatial comprehension capabilities without relying on explicit 3D inputs or depth estimators. SF aligns intermediate visual embeddings of VLAs with geometric representations produced by pretrained 3D foundation models. By enforcing alignment at intermediate layers, SF guides VLAs to encode richer spatial representations that enhance action precision.Extensive experiments in simulation and real-world environments demonstrate that SF achieves state-of-the-art results, surpassing both 2D- and 3D-based VLAs. SF further accelerates training by up to 3.8x and improves data efficiency across diverse robotic tasks. Project page is at https://spatial-forcing.github.io/

HKUSTGZ HKUSTGZ
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Oct 14, 2025 4

OmniFusion: Simultaneous Multilingual Multimodal Translations via Modular Fusion

There has been significant progress in open-source text-only translation large language models (LLMs) with better language coverage and quality. However, these models can be only used in cascaded pipelines for speech translation (ST), performing automatic speech recognition first followed by translation. This introduces additional latency, which is particularly critical in simultaneous ST (SimulST), and prevents the model from exploiting multimodal context, such as images, which can aid disambiguation. Pretrained multimodal foundation models (MMFMs) already possess strong perception and reasoning capabilities across multiple modalities, but generally lack the multilingual coverage and specialized translation performance of dedicated translation LLMs. To build an effective multimodal translation system, we propose an end-to-end approach that fuses MMFMs with translation LLMs. We introduce a novel fusion strategy that connects hidden states from multiple layers of a pretrained MMFM to a translation LLM, enabling joint end-to-end training. The resulting model, OmniFusion, built on Omni 2.5-7B as the MMFM and SeedX PPO-7B as the translation LLM, can perform speech-to-text, speech-and-image-to-text, and text-and-image-to-text translation. Experiments demonstrate that OmniFusion effectively leverages both audio and visual inputs, achieves a 1-second latency reduction in SimulST compared to cascaded pipelines and also improves the overall translation qualityCode is available at https://github.com/saikoneru/OmniFusion.

kit-isl-ai4lt ISL & AI4LT @ KIT
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Nov 28, 2025 2

Prithvi-Complimentary Adaptive Fusion Encoder (CAFE): unlocking full-potential for flood inundation mapping

Geo-Foundation Models (GFMs), have proven effective in diverse downstream applications, including semantic segmentation, classification, and regression tasks. However, in case of flood mapping using Sen1Flood11 dataset as a downstream task, GFMs struggles to outperform the baseline U-Net, highlighting model's limitation in capturing critical local nuances. To address this, we present the Prithvi-Complementary Adaptive Fusion Encoder (CAFE), which integrate Prithvi GFM pretrained encoder with a parallel CNN residual branch enhanced by Convolutional Attention Modules (CAM). Prithvi-CAFE enables fast and efficient fine-tuning through adapters in Prithvi and performs multi-scale, multi-level fusion with CNN features, capturing critical local details while preserving long-range dependencies. We achieve state-of-the-art results on two comprehensive flood mapping datasets: Sen1Flood11 and FloodPlanet. On Sen1Flood11 test data, Prithvi-CAFE (IoU 83.41) outperforms the original Prithvi (IoU 82.50) and other major GFMs (TerraMind 82.90, DOFA 81.54, spectralGPT: 81.02). The improvement is even more pronounced on the hold-out test site, where Prithvi-CAFE achieves an IoU of 81.37 compared to the baseline U-Net (70.57) and original Prithvi (72.42). On FloodPlanet, Prithvi-CAFE also surpasses the baseline U-Net and other GFMs, achieving an IoU of 64.70 compared to U-Net (60.14), Terramind (62.33), DOFA (59.15) and Prithvi 2.0 (61.91). Our proposed simple yet effective Prithvi-CAFE demonstrates strong potential for improving segmentation tasks where multi-channel and multi-modal data provide complementary information and local details are critical. The code is released on https://github.com/Sk-2103/Prithvi-CAFE{Prithvi-CAFE Github}

  • 3 authors
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Jan 5 3

DINO-SAE: DINO Spherical Autoencoder for High-Fidelity Image Reconstruction and Generation

Recent studies have explored using pretrained Vision Foundation Models (VFMs) such as DINO for generative autoencoders, showing strong generative performance. Unfortunately, existing approaches often suffer from limited reconstruction fidelity due to the loss of high-frequency details. In this work, we present the DINO Spherical Autoencoder (DINO-SAE), a framework that bridges semantic representation and pixel-level reconstruction. Our key insight is that semantic information in contrastive representations is primarily encoded in the direction of feature vectors, while forcing strict magnitude matching can hinder the encoder from preserving fine-grained details. To address this, we introduce Hierarchical Convolutional Patch Embedding module that enhances local structure and texture preservation, and Cosine Similarity Alignment objective that enforces semantic consistency while allowing flexible feature magnitudes for detail retention. Furthermore, leveraging the observation that SSL-based foundation model representations intrinsically lie on a hypersphere, we employ Riemannian Flow Matching to train a Diffusion Transformer (DiT) directly on this spherical latent manifold. Experiments on ImageNet-1K demonstrate that our approach achieves state-of-the-art reconstruction quality, reaching 0.37 rFID and 26.2 dB PSNR, while maintaining strong semantic alignment to the pretrained VFM. Notably, our Riemannian Flow Matching-based DiT exhibits efficient convergence, achieving a gFID of 3.47 at 80 epochs.

  • 3 authors
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Jan 30 3

VQRAE: Representation Quantization Autoencoders for Multimodal Understanding, Generation and Reconstruction

Unifying multimodal understanding, generation and reconstruction representation in a single tokenizer remains a key challenge in building unified models. Previous research predominantly attempts to address this in a dual encoder paradigm, e.g., utilizing the separate encoders for understanding and generation respectively or balancing semantic representations and low-level features with contrastive loss. In this paper, we propose VQRAE, a Vector Quantization version of Representation AutoEncoders, which pioneers the first exploration in unified representation to produce Continuous semantic features for image understanding and Discrete tokens for visual generation within a unified tokenizer. Specifically, we build upon pretrained vision foundation models with a symmetric ViT decoder and adopt a two-stage training strategy: first, it freezes the encoder and learns a high-dimensional semantic VQ codebook with pixel reconstruction objective; then jointly optimizes the encoder with self-distillation constraints. This design enables negligible semantic information for maintaining the ability of multimodal understanding, discrete tokens that are compatible for generation and fine-grained reconstruction. Besides, we identify the intriguing property in quantizing semantic encoders that rely on high-dimensional codebook in contrast to the previous common practice of low-dimensional codebook in image reconstruction. The semantic VQ codebook can achieve a 100% utilization ratio at a dimension of 1536. VQRAE presents competitive performance on several benchmarks of visual understanding, generation and reconstruction with promising scaling property in the autoregressive paradigm for its discrete merits.

Make Geometry Matter for Spatial Reasoning

Empowered by large-scale training, vision-language models (VLMs) achieve strong image and video understanding, yet their ability to perform spatial reasoning in both static scenes and dynamic videos remains limited. Recent advances try to handle this limitation by injecting geometry tokens from pretrained 3D foundation models into VLMs. Nevertheless, we observe that naive token fusion followed by standard fine-tuning in this line of work often leaves such geometric cues underutilized for spatial reasoning, as VLMs tend to rely heavily on 2D visual cues. In this paper, we propose GeoSR, a framework designed to make geometry matter by encouraging VLMs to actively reason with geometry tokens. GeoSR introduces two key components: (1) Geometry-Unleashing Masking, which strategically masks portions of 2D vision tokens during training to weaken non-geometric shortcuts and force the model to consult geometry tokens for spatial reasoning; and (2) Geometry-Guided Fusion, a gated routing mechanism that adaptively amplifies geometry token contributions in regions where geometric evidence is critical. Together, these designs unleash the potential of geometry tokens for spatial reasoning tasks. Extensive experiments on both static and dynamic spatial reasoning benchmarks demonstrate that GeoSR consistently outperforms prior methods and establishes new state-of-the-art performance by effectively leveraging geometric information. The project page is available at https://suhzhang.github.io/GeoSR/.

VIGOR: VIdeo Geometry-Oriented Reward for Temporal Generative Alignment

Video diffusion models lack explicit geometric supervision during training, leading to inconsistency artifacts such as object deformation, spatial drift, and depth violations in generated videos. To address this limitation, we propose a geometry-based reward model that leverages pretrained geometric foundation models to evaluate multi-view consistency through cross-frame reprojection error. Unlike previous geometric metrics that measure inconsistency in pixel space, where pixel intensity may introduce additional noise, our approach conducts error computation in a pointwise fashion, yielding a more physically grounded and robust error metric. Furthermore, we introduce a geometry-aware sampling strategy that filters out low-texture and non-semantic regions, focusing evaluation on geometrically meaningful areas with reliable correspondences to improve robustness. We apply this reward model to align video diffusion models through two complementary pathways: post-training of a bidirectional model via SFT or Reinforcement Learning and inference-time optimization of a Causal Video Model (e.g., Streaming video generator) via test-time scaling with our reward as a path verifier. Experimental results validate the effectiveness of our design, demonstrating that our geometry-based reward provides superior robustness compared to other variants. By enabling efficient inference-time scaling, our method offers a practical solution for enhancing open-source video models without requiring extensive computational resources for retraining.

  • 4 authors
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Mar 17

Cortical Policy: A Dual-Stream View Transformer for Robotic Manipulation

View transformers process multi-view observations to predict actions and have shown impressive performance in robotic manipulation. Existing methods typically extract static visual representations in a view-specific manner, leading to inadequate 3D spatial reasoning ability and a lack of dynamic adaptation. Taking inspiration from how the human brain integrates static and dynamic views to address these challenges, we propose Cortical Policy, a novel dual-stream view transformer for robotic manipulation that jointly reasons from static-view and dynamic-view streams. The static-view stream enhances spatial understanding by aligning features of geometrically consistent keypoints extracted from a pretrained 3D foundation model. The dynamic-view stream achieves adaptive adjustment through position-aware pretraining of an egocentric gaze estimation model, computationally replicating the human cortical dorsal pathway. Subsequently, the complementary view representations of both streams are integrated to determine the final actions, enabling the model to handle spatially-complex and dynamically-changing tasks under language conditions. Empirical evaluations on RLBench, the challenging COLOSSEUM benchmark, and real-world tasks demonstrate that Cortical Policy outperforms state-of-the-art baselines substantially, validating the superiority of dual-stream design for visuomotor control. Our cortex-inspired framework offers a fresh perspective for robotic manipulation and holds potential for broader application in vision-based robot control.

  • 6 authors
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Mar 21

SeqTex: Generate Mesh Textures in Video Sequence

Training native 3D texture generative models remains a fundamental yet challenging problem, largely due to the limited availability of large-scale, high-quality 3D texture datasets. This scarcity hinders generalization to real-world scenarios. To address this, most existing methods finetune foundation image generative models to exploit their learned visual priors. However, these approaches typically generate only multi-view images and rely on post-processing to produce UV texture maps -- an essential representation in modern graphics pipelines. Such two-stage pipelines often suffer from error accumulation and spatial inconsistencies across the 3D surface. In this paper, we introduce SeqTex, a novel end-to-end framework that leverages the visual knowledge encoded in pretrained video foundation models to directly generate complete UV texture maps. Unlike previous methods that model the distribution of UV textures in isolation, SeqTex reformulates the task as a sequence generation problem, enabling the model to learn the joint distribution of multi-view renderings and UV textures. This design effectively transfers the consistent image-space priors from video foundation models into the UV domain. To further enhance performance, we propose several architectural innovations: a decoupled multi-view and UV branch design, geometry-informed attention to guide cross-domain feature alignment, and adaptive token resolution to preserve fine texture details while maintaining computational efficiency. Together, these components allow SeqTex to fully utilize pretrained video priors and synthesize high-fidelity UV texture maps without the need for post-processing. Extensive experiments show that SeqTex achieves state-of-the-art performance on both image-conditioned and text-conditioned 3D texture generation tasks, with superior 3D consistency, texture-geometry alignment, and real-world generalization.

  • 7 authors
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Jul 6, 2025 1

With Limited Data for Multimodal Alignment, Let the STRUCTURE Guide You

Multimodal models have demonstrated powerful capabilities in complex tasks requiring multimodal alignment including zero-shot classification and cross-modal retrieval. However, existing models typically rely on millions of paired multimodal samples, which are prohibitively expensive or infeasible to obtain in many domains. In this work, we explore the feasibility of building multimodal models with limited amount of paired data by aligning pretrained unimodal foundation models. We show that high-quality alignment is possible with as few as tens of thousands of paired samplesx2013less than 1% of the data typically used in the field. To achieve this, we introduce STRUCTURE, an effective regularization technique that preserves the neighborhood geometry of the latent space of unimodal encoders. Additionally, we show that aligning last layers is often suboptimal and demonstrate the benefits of aligning the layers with the highest representational similarity across modalities. These two components can be readily incorporated into existing alignment methods, yielding substantial gains across 24 zero-shot image classification and retrieval benchmarks, with average relative improvement of 51.6% in classification and 91.8% in retrieval tasks. Our results highlight the effectiveness and broad applicability of our framework for limited-sample multimodal learning and offer a promising path forward for resource-constrained domains.

  • 4 authors
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Jun 20, 2025

RealPDEBench: A Benchmark for Complex Physical Systems with Real-World Data

Predicting the evolution of complex physical systems remains a central problem in science and engineering. Despite rapid progress in scientific Machine Learning (ML) models, a critical bottleneck is the lack of expensive real-world data, resulting in most current models being trained and validated on simulated data. Beyond limiting the development and evaluation of scientific ML, this gap also hinders research into essential tasks such as sim-to-real transfer. We introduce RealPDEBench, the first benchmark for scientific ML that integrates real-world measurements with paired numerical simulations. RealPDEBench consists of five datasets, three tasks, eight metrics, and ten baselines. We first present five real-world measured datasets with paired simulated datasets across different complex physical systems. We further define three tasks, which allow comparisons between real-world and simulated data, and facilitate the development of methods to bridge the two. Moreover, we design eight evaluation metrics, spanning data-oriented and physics-oriented metrics, and finally benchmark ten representative baselines, including state-of-the-art models, pretrained PDE foundation models, and a traditional method. Experiments reveal significant discrepancies between simulated and real-world data, while showing that pretraining with simulated data consistently improves both accuracy and convergence. In this work, we hope to provide insights from real-world data, advancing scientific ML toward bridging the sim-to-real gap and real-world deployment. Our benchmark, datasets, and instructions are available at https://realpdebench.github.io/.

  • 16 authors
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Jan 5

VO-DP: Semantic-Geometric Adaptive Diffusion Policy for Vision-Only Robotic Manipulation

In the context of imitation learning, visuomotor-based diffusion policy learning is one of the main directions in robotic manipulation. Most of these approaches rely on point clouds as observation inputs and construct scene representations through point clouds feature learning, which enables them to achieve remarkable accuracy. However, the existing literature lacks an in-depth exploration of vision-only solutions that have significant potential. In this paper, we propose a Vision-Only and single-view Diffusion Policy learning method (VO-DP) that leverages pretrained visual foundation models to achieve effective fusion of semantic and geometric features. We utilize intermediate features from VGGT incorporating semantic features from DINOv2 and geometric features from Alternating Attention blocks. Features are fused via cross-attention and spatially compressed with a CNN to form the input to the policy head. Extensive experiments demonstrate that VO-DP not only outperforms the vision-only baseline DP significantly but also exhibits distinct performance trends against the point cloud-based method DP3: in simulation tasks, VO-DP achieves an average success rate of 64.6% on par with DP3 64.0% and far higher than DP 34.8%, while in real-world tasks, it reaches 87.9%, outperforming both DP3 67.5% and DP 11.2% by a notable margin. Further robustness evaluations confirm that VO-DP remains highly stable under varying conditions including color, size, background, and lighting. Lastly, we open-source a training library for robotic manipulation. Built on Accelerate, this library supports multi-machine and multi-GPU parallel training, as well as mixed precision training. It is compatible with visuomotor policies such as DP, DP3 and VO-DP, and also supports the RoboTwin simulator.

  • 10 authors
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Oct 17, 2025

Q-Former Autoencoder: A Modern Framework for Medical Anomaly Detection

Anomaly detection in medical images is an important yet challenging task due to the diversity of possible anomalies and the practical impossibility of collecting comprehensively annotated data sets. In this work, we tackle unsupervised medical anomaly detection proposing a modernized autoencoder-based framework, the Q-Former Autoencoder, that leverages state-of-the-art pretrained vision foundation models, such as DINO, DINOv2 and Masked Autoencoder. Instead of training encoders from scratch, we directly utilize frozen vision foundation models as feature extractors, enabling rich, multi-stage, high-level representations without domain-specific fine-tuning. We propose the usage of the Q-Former architecture as the bottleneck, which enables the control of the length of the reconstruction sequence, while efficiently aggregating multiscale features. Additionally, we incorporate a perceptual loss computed using features from a pretrained Masked Autoencoder, guiding the reconstruction towards semantically meaningful structures. Our framework is evaluated on four diverse medical anomaly detection benchmarks, achieving state-of-the-art results on BraTS2021, RESC, and RSNA. Our results highlight the potential of vision foundation model encoders, pretrained on natural images, to generalize effectively to medical image analysis tasks without further fine-tuning. We release the code and models at https://github.com/emirhanbayar/QFAE.

  • 4 authors
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Jul 24, 2025

MIS-FM: 3D Medical Image Segmentation using Foundation Models Pretrained on a Large-Scale Unannotated Dataset

Pretraining with large-scale 3D volumes has a potential for improving the segmentation performance on a target medical image dataset where the training images and annotations are limited. Due to the high cost of acquiring pixel-level segmentation annotations on the large-scale pretraining dataset, pretraining with unannotated images is highly desirable. In this work, we propose a novel self-supervised learning strategy named Volume Fusion (VF) for pretraining 3D segmentation models. It fuses several random patches from a foreground sub-volume to a background sub-volume based on a predefined set of discrete fusion coefficients, and forces the model to predict the fusion coefficient of each voxel, which is formulated as a self-supervised segmentation task without manual annotations. Additionally, we propose a novel network architecture based on parallel convolution and transformer blocks that is suitable to be transferred to different downstream segmentation tasks with various scales of organs and lesions. The proposed model was pretrained with 110k unannotated 3D CT volumes, and experiments with different downstream segmentation targets including head and neck organs, thoracic/abdominal organs showed that our pretrained model largely outperformed training from scratch and several state-of-the-art self-supervised training methods and segmentation models. The code and pretrained model are available at https://github.com/openmedlab/MIS-FM.

  • 6 authors
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Jun 29, 2023

THEMIS: Unlocking Pretrained Knowledge with Foundation Model Embeddings for Anomaly Detection in Time Series

Time series anomaly detection forms a very crucial area in several domains but poses substantial challenges. Due to time series data possessing seasonality, trends, noise, and evolving patterns (concept drift), it becomes very difficult to set a general notion of what constitutes normal behavior. Anomalies themselves could be varied, ranging from a single outlier to contextual or collective anomalies, and are normally very rare; hence, the dataset is largely imbalanced. Additional layers of complexities arise due to the problems of increased dimensionality of modern time series, real-time detection criteria, setting up appropriate detection thresholds, and arriving at results that are interpretable. To embrace these multifaceted challenges, very strong, flexible, and interpretable approaches are required. This paper presents THEMIS, a new framework for time series anomaly detection that exploits pretrained knowledge from foundation models. THEMIS extracts embeddings from the encoder of the Chronos time series foundation model and applies outlier detection techniques like Local Outlier Factor and Spectral Decomposition on the self-similarity matrix, to spot anomalies in the data. Our experiments show that this modular method achieves SOTA results on the MSL dataset and performs quite competitively on the SMAP and SWAT^* datasets. Notably, THEMIS exceeds models trained specifically for anomaly detection, presenting hyperparameter robustness and interpretability by default. This paper advocates for pretrained representations from foundation models for performing efficient and adaptable anomaly detection for time series data.

  • 4 authors
·
Oct 4, 2025

Foundation Model-oriented Robustness: Robust Image Model Evaluation with Pretrained Models

Machine learning has demonstrated remarkable performance over finite datasets, yet whether the scores over the fixed benchmarks can sufficiently indicate the model's performance in the real world is still in discussion. In reality, an ideal robust model will probably behave similarly to the oracle (e.g., the human users), thus a good evaluation protocol is probably to evaluate the models' behaviors in comparison to the oracle. In this paper, we introduce a new robustness measurement that directly measures the image classification model's performance compared with a surrogate oracle (i.e., a foundation model). Besides, we design a simple method that can accomplish the evaluation beyond the scope of the benchmarks. Our method extends the image datasets with new samples that are sufficiently perturbed to be distinct from the ones in the original sets, but are still bounded within the same image-label structure the original test image represents, constrained by a foundation model pretrained with a large amount of samples. As a result, our new method will offer us a new way to evaluate the models' robustness performance, free of limitations of fixed benchmarks or constrained perturbations, although scoped by the power of the oracle. In addition to the evaluation results, we also leverage our generated data to understand the behaviors of the model and our new evaluation strategies.

  • 6 authors
·
Aug 21, 2023

Sensing Cardiac Health Across Scenarios and Devices: A Multi-Modal Foundation Model Pretrained on Heterogeneous Data from 1.7 Million Individuals

Cardiac biosignals, such as electrocardiograms (ECG) and photoplethysmograms (PPG), are of paramount importance for the diagnosis, prevention, and management of cardiovascular diseases, and have been extensively used in a variety of clinical tasks. Conventional deep learning approaches for analyzing these signals typically rely on homogeneous datasets and static bespoke models, limiting their robustness and generalizability across diverse clinical settings and acquisition protocols. In this study, we present a cardiac sensing foundation model (CSFM) that leverages advanced transformer architectures and a generative, masked pretraining strategy to learn unified representations from vast, heterogeneous health records. Our model is pretrained on an innovative multi-modal integration of data from multiple large-scale datasets (including MIMIC-III-WDB, MIMIC-IV-ECG, and CODE), comprising cardiac signals and the corresponding clinical or machine-generated text reports from approximately 1.7 million individuals. We demonstrate that the embeddings derived from our CSFM not only serve as effective feature extractors across diverse cardiac sensing scenarios, but also enable seamless transfer learning across varying input configurations and sensor modalities. Extensive evaluations across diagnostic tasks, demographic information recognition, vital sign measurement, clinical outcome prediction, and ECG question answering reveal that CSFM consistently outperforms traditional one-modal-one-task approaches. Notably, CSFM exhibits robust performance across multiple ECG lead configurations from standard 12-lead systems to single-lead setups, and in scenarios where only ECG, only PPG, or a combination thereof is available. These findings highlight the potential of CSFM as a versatile and scalable solution, for comprehensive cardiac monitoring.

  • 13 authors
·
Jun 23, 2025

The NCS-Model: A seismic foundation model trained on the Norwegian repository of public data

We present the NCS-models, a family of seismic foundation models pretrained on a large share of full-stack seismic cubes from the Norwegian Continental Shelf (NCS) available through the public DISKOS database. The model weights are open-sourced for the wider geoscience community. Foundation models trained with large-scale self-supervision are emerging as a promising basis for automatic seismic interpretation. However, most existing seismic models rely on limited or proprietary datasets, and it remains unclear how well natural-image foundation models transfer to seismic data. Our goals are to develop basin-scale seismic foundation models, provide practical recipes for scalable 3D training, and quantify the effects of basin-targeted pretraining and token dimensionality on downstream interpretation performance. Using masked autoencoders with Vision Transformer backbones, we pretrain models on a DISKOS-derived corpus of 3D time- and depth-migrated seismic volumes. The NCS-model variants use 2D, 2.5D multi-view, and 3D tokenization within a matched training setup. Transfer is evaluated on interpretation benchmarks using frozen backbones and a simple k-nearest neighbor classifier. Baselines include an ImageNet-pretrained MAE, a frontier vision foundation model, and a globally pretrained seismic model. Natural-image pretrained models do not reliably transfer, reflecting the large domain gap between natural images and seismic data. Seismic pretraining is necessary for robust transfer, and large-scale basin-targeted pretraining yields further gains over a smaller globally pretrained seismic baseline. The NCS-models achieve the best overall performance without fine-tuning, while 2.5D tokenization offers the strongest accuracy-efficiency tradeoff and the embeddings support similarity search for interactive interpretation.

  • 6 authors
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Mar 24

Towards A Generalizable Pathology Foundation Model via Unified Knowledge Distillation

Foundation models pretrained on large-scale datasets are revolutionizing the field of computational pathology (CPath). The generalization ability of foundation models is crucial for the success in various downstream clinical tasks. However, current foundation models have only been evaluated on a limited type and number of tasks, leaving their generalization ability and overall performance unclear. To address this gap, we established a most comprehensive benchmark to evaluate the performance of off-the-shelf foundation models across six distinct clinical task types, encompassing a total of 39 specific tasks. Our findings reveal that existing foundation models excel at certain task types but struggle to effectively handle the full breadth of clinical tasks. To improve the generalization of pathology foundation models, we propose a unified knowledge distillation framework consisting of both expert and self knowledge distillation, where the former allows the model to learn from the knowledge of multiple expert models, while the latter leverages self-distillation to enable image representation learning via local-global alignment. Based on this framework, a Generalizable Pathology Foundation Model (GPFM) is pretrained on a large-scale dataset consisting of 190 million images from around 86,000 public H&E whole slides across 34 major tissue types. Evaluated on the established benchmark, GPFM achieves an impressive average rank of 1.36, with 29 tasks ranked 1st, while the the second-best model, UNI, attains an average rank of 2.96, with only 4 tasks ranked 1st. The superior generalization of GPFM demonstrates its exceptional modeling capabilities across a wide range of clinical tasks, positioning it as a new cornerstone for feature representation in CPath.

  • 16 authors
·
Jul 25, 2024

Foundation Models for Decision Making: Problems, Methods, and Opportunities

Foundation models pretrained on diverse data at scale have demonstrated extraordinary capabilities in a wide range of vision and language tasks. When such models are deployed in real world environments, they inevitably interface with other entities and agents. For example, language models are often used to interact with human beings through dialogue, and visual perception models are used to autonomously navigate neighborhood streets. In response to these developments, new paradigms are emerging for training foundation models to interact with other agents and perform long-term reasoning. These paradigms leverage the existence of ever-larger datasets curated for multimodal, multitask, and generalist interaction. Research at the intersection of foundation models and decision making holds tremendous promise for creating powerful new systems that can interact effectively across a diverse range of applications such as dialogue, autonomous driving, healthcare, education, and robotics. In this manuscript, we examine the scope of foundation models for decision making, and provide conceptual tools and technical background for understanding the problem space and exploring new research directions. We review recent approaches that ground foundation models in practical decision making applications through a variety of methods such as prompting, conditional generative modeling, planning, optimal control, and reinforcement learning, and discuss common challenges and open problems in the field.

  • 6 authors
·
Mar 7, 2023

Towards Open Respiratory Acoustic Foundation Models: Pretraining and Benchmarking

Respiratory audio, such as coughing and breathing sounds, has predictive power for a wide range of healthcare applications, yet is currently under-explored. The main problem for those applications arises from the difficulty in collecting large labeled task-specific data for model development. Generalizable respiratory acoustic foundation models pretrained with unlabeled data would offer appealing advantages and possibly unlock this impasse. However, given the safety-critical nature of healthcare applications, it is pivotal to also ensure openness and replicability for any proposed foundation model solution. To this end, we introduce OPERA, an OPEn Respiratory Acoustic foundation model pretraining and benchmarking system, as the first approach answering this need. We curate large-scale respiratory audio datasets (~136K samples, 440 hours), pretrain three pioneering foundation models, and build a benchmark consisting of 19 downstream respiratory health tasks for evaluation. Our pretrained models demonstrate superior performance (against existing acoustic models pretrained with general audio on 16 out of 19 tasks) and generalizability (to unseen datasets and new respiratory audio modalities). This highlights the great promise of respiratory acoustic foundation models and encourages more studies using OPERA as an open resource to accelerate research on respiratory audio for health. The system is accessible from https://github.com/evelyn0414/OPERA.

  • 9 authors
·
Jun 23, 2024

A Multimodal Vision Foundation Model for Clinical Dermatology

Diagnosing and treating skin diseases require advanced visual skills across domains and the ability to synthesize information from multiple imaging modalities. While current deep learning models excel at specific tasks like skin cancer diagnosis from dermoscopic images, they struggle to meet the complex, multimodal requirements of clinical practice. Here, we introduce PanDerm, a multimodal dermatology foundation model pretrained through self-supervised learning on over 2 million real-world skin disease images from 11 clinical institutions across 4 imaging modalities. We evaluated PanDerm on 28 diverse benchmarks, including skin cancer screening, risk stratification, differential diagnosis of common and rare skin conditions, lesion segmentation, longitudinal monitoring, and metastasis prediction and prognosis. PanDerm achieved state-of-the-art performance across all evaluated tasks, often outperforming existing models when using only 10% of labeled data. We conducted three reader studies to assess PanDerm's potential clinical utility. PanDerm outperformed clinicians by 10.2% in early-stage melanoma detection through longitudinal analysis, improved clinicians' skin cancer diagnostic accuracy by 11% on dermoscopy images, and enhanced non-dermatologist healthcare providers' differential diagnosis by 16.5% across 128 skin conditions on clinical photographs. These results demonstrate PanDerm's potential to improve patient care across diverse clinical scenarios and serve as a model for developing multimodal foundation models in other medical specialties, potentially accelerating the integration of AI support in healthcare. The code can be found at https://github.com/SiyuanYan1/PanDerm.

  • 25 authors
·
Oct 19, 2024

MolSpectLLM: A Molecular Foundation Model Bridging Spectroscopy, Molecule Elucidation, and 3D Structure Generation

Recent advances in molecular foundation models have shown impressive performance in molecular property prediction and de novo molecular design, with promising applications in areas such as drug discovery and reaction prediction. Nevertheless, most existing approaches rely exclusively on SMILES representations and overlook both experimental spectra and 3D structural information-two indispensable sources for capturing molecular behavior in real-world scenarios. This limitation reduces their effectiveness in tasks where stereochemistry, spatial conformation, and experimental validation are critical. To overcome these challenges, we propose MolSpectLLM, a molecular foundation model pretrained on Qwen2.5-7B that unifies experimental spectroscopy with molecular 3D structure. By explicitly modeling molecular spectra, MolSpectLLM achieves state-of-the-art performance on spectrum-related tasks, with an average accuracy of 0.53 across NMR, IR, and MS benchmarks. MolSpectLLM also shows strong performance on the spectra analysis task, obtaining 15.5% sequence accuracy and 41.7% token accuracy on Spectra-to-SMILES, substantially outperforming large general-purpose LLMs. More importantly, MolSpectLLM not only achieves strong performance on molecular elucidation tasks, but also generates accurate 3D molecular structures directly from SMILES or spectral inputs, bridging spectral analysis, molecular elucidation, and molecular design. Code are available at https://github.com/Eurekashen/MolSpectLLM{https://github.com/Eurekashen/MolSpectLLM}.

  • 9 authors
·
Sep 26, 2025

CytoFM: The first cytology foundation model

Cytology is essential for cancer diagnostics and screening due to its minimally invasive nature. However, the development of robust deep learning models for digital cytology is challenging due to the heterogeneity in staining and preparation methods of samples, differences across organs, and the limited availability of large, diverse, annotated datasets. Developing a task-specific model for every cytology application is impractical and non-cytology-specific foundation models struggle to generalize to tasks in this domain where the emphasis is on cell morphology. To address these challenges, we introduce CytoFM, the first cytology self-supervised foundation model. Using iBOT, a self-supervised Vision Transformer (ViT) training framework incorporating masked image modeling and self-distillation, we pretrain CytoFM on a diverse collection of cytology datasets to learn robust, transferable representations. We evaluate CytoFM on multiple downstream cytology tasks, including breast cancer classification and cell type identification, using an attention-based multiple instance learning framework. Our results demonstrate that CytoFM performs better on two out of three downstream tasks than existing foundation models pretrained on histopathology (UNI) or natural images (iBOT-Imagenet). Visualizations of learned representations demonstrate our model is able to attend to cytologically relevant features. Despite a small pre-training dataset, CytoFM's promising results highlight the ability of task-agnostic pre-training approaches to learn robust and generalizable features from cytology data.

  • 8 authors
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Apr 17, 2025

Spectral-Enhanced Transformers: Leveraging Large-Scale Pretrained Models for Hyperspectral Object Tracking

Hyperspectral object tracking using snapshot mosaic cameras is emerging as it provides enhanced spectral information alongside spatial data, contributing to a more comprehensive understanding of material properties. Using transformers, which have consistently outperformed convolutional neural networks (CNNs) in learning better feature representations, would be expected to be effective for Hyperspectral object tracking. However, training large transformers necessitates extensive datasets and prolonged training periods. This is particularly critical for complex tasks like object tracking, and the scarcity of large datasets in the hyperspectral domain acts as a bottleneck in achieving the full potential of powerful transformer models. This paper proposes an effective methodology that adapts large pretrained transformer-based foundation models for hyperspectral object tracking. We propose an adaptive, learnable spatial-spectral token fusion module that can be extended to any transformer-based backbone for learning inherent spatial-spectral features in hyperspectral data. Furthermore, our model incorporates a cross-modality training pipeline that facilitates effective learning across hyperspectral datasets collected with different sensor modalities. This enables the extraction of complementary knowledge from additional modalities, whether or not they are present during testing. Our proposed model also achieves superior performance with minimal training iterations.

  • 5 authors
·
Feb 25, 2025

Pillar-0: A New Frontier for Radiology Foundation Models

Radiology plays an integral role in modern medicine, yet rising imaging volumes have far outpaced workforce growth. Foundation models offer a path toward assisting with the full spectrum of radiology tasks, but existing medical models remain limited: they process volumetric CT and MRI as low-fidelity 2D slices, discard critical grayscale contrast information, and lack evaluation frameworks that reflect real clinical practice. We introduce Pillar-0, a radiology foundation model pretrained on 42,990 abdomen-pelvis CTs, 86,411 chest CTs, 14,348 head CTs, and 11,543 breast MRIs from a large academic center, together with RATE, a scalable framework that extracts structured labels for 366 radiologic findings with near-perfect accuracy using LLMs. Across internal test sets of 14,230 abdomen-pelvis CTs, 10,646 chest CTs, 4,906 head CTs, and 1,585 breast MRIs, Pillar-0 establishes a new performance frontier, achieving mean AUROCs of 86.4, 88.0, 90.1, and 82.9, outperforming MedGemma (Google), MedImageInsight (Microsoft), Lingshu (Alibaba), and Merlin (Stanford) by 7.8-15.8 AUROC points and ranking best in 87.2\% (319/366) tasks. Pillar-0 similarly outperforms all baselines in an external validation on the Stanford Abdominal CT dataset, including Merlin (82.2 vs 80.6 AUROC). Pillar-0 extends to tasks beyond its pretraining, such as long-horizon lung cancer risk prediction, where it improves upon the state-of-the-art Sybil by 3.0 C-index points on NLST, and generalizes with gains of 5.9 (MGH) and 1.9 (CGMH). In brain hemorrhage detection, Pillar-0 obtained a >95 AUROC when using only 1/20th of the data of the next most sample efficient baseline. Pillar-0 and RATE together provide an open, clinically rigorous foundation for building high-performance radiology systems, enabling applications that were previously infeasible due to computational, data, and evaluation constraints.

YalaLab Yala Lab
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Nov 21, 2025 2

Surg-3M: A Dataset and Foundation Model for Perception in Surgical Settings

Advancements in computer-assisted surgical procedures heavily rely on accurate visual data interpretation from camera systems used during surgeries. Traditional open-access datasets focusing on surgical procedures are often limited by their small size, typically consisting of fewer than 100 videos with less than 100K images. To address these constraints, a new dataset called Surg-3M has been compiled using a novel aggregation pipeline that collects high-resolution videos from online sources. Featuring an extensive collection of over 4K surgical videos and more than 3 million high-quality images from multiple procedure types, Surg-3M offers a comprehensive resource surpassing existing alternatives in size and scope, including two novel tasks. To demonstrate the effectiveness of this dataset, we present SurgFM, a self-supervised foundation model pretrained on Surg-3M that achieves impressive results in downstream tasks such as surgical phase recognition, action recognition, and tool presence detection. Combining key components from ConvNeXt, DINO, and an innovative augmented distillation method, SurgFM exhibits exceptional performance compared to specialist architectures across various benchmarks. Our experimental results show that SurgFM outperforms state-of-the-art models in multiple downstream tasks, including significant gains in surgical phase recognition (+8.9pp, +4.7pp, and +3.9pp of Jaccard in AutoLaparo, M2CAI16, and Cholec80), action recognition (+3.1pp of mAP in CholecT50) and tool presence detection (+4.6pp of mAP in Cholec80). Moreover, even when using only half of the data, SurgFM outperforms state-of-the-art models in AutoLaparo and achieves state-of-the-art performance in Cholec80. Both Surg-3M and SurgFM have significant potential to accelerate progress towards developing autonomous robotic surgery systems.

  • 5 authors
·
Mar 25, 2025

NovoMolGen: Rethinking Molecular Language Model Pretraining

Designing de-novo molecules with desired property profiles requires efficient exploration of the vast chemical space ranging from 10^{23} to 10^{60} possible synthesizable candidates. While various deep generative models have been developed to design small molecules using diverse input representations, Molecular Large Language Models (Mol-LLMs) based on string representations have emerged as a scalable approach capable of exploring billions of molecules. However, there remains limited understanding regarding how standard language modeling practices such as textual representations, tokenization strategies, model size, and dataset scale impact molecular generation performance. In this work, we systematically investigate these critical aspects by introducing NovoMolGen, a family of transformer-based foundation models pretrained on 1.5 billion molecules for de-novo molecule generation. Through extensive empirical analyses, we identify a weak correlation between performance metrics measured during pretraining and actual downstream performance, revealing important distinctions between molecular and general NLP training dynamics. NovoMolGen establishes new state-of-the-art results, substantially outperforming prior Mol-LLMs and specialized generative models in both unconstrained and goal-directed molecular generation tasks, thus providing a robust foundation for advancing efficient and effective molecular modeling strategies.

  • 5 authors
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Aug 18, 2025

HyenaDNA: Long-Range Genomic Sequence Modeling at Single Nucleotide Resolution

Genomic (DNA) sequences encode an enormous amount of information for gene regulation and protein synthesis. Similar to natural language models, researchers have proposed foundation models in genomics to learn generalizable features from unlabeled genome data that can then be fine-tuned for downstream tasks such as identifying regulatory elements. Due to the quadratic scaling of attention, previous Transformer-based genomic models have used 512 to 4k tokens as context (<0.001% of the human genome), significantly limiting the modeling of long-range interactions in DNA. In addition, these methods rely on tokenizers to aggregate meaningful DNA units, losing single nucleotide resolution where subtle genetic variations can completely alter protein function via single nucleotide polymorphisms (SNPs). Recently, Hyena, a large language model based on implicit convolutions was shown to match attention in quality while allowing longer context lengths and lower time complexity. Leveraging Hyenas new long-range capabilities, we present HyenaDNA, a genomic foundation model pretrained on the human reference genome with context lengths of up to 1 million tokens at the single nucleotide-level, an up to 500x increase over previous dense attention-based models. HyenaDNA scales sub-quadratically in sequence length (training up to 160x faster than Transformer), uses single nucleotide tokens, and has full global context at each layer. We explore what longer context enables - including the first use of in-context learning in genomics for simple adaptation to novel tasks without updating pretrained model weights. On fine-tuned benchmarks from the Nucleotide Transformer, HyenaDNA reaches state-of-the-art (SotA) on 12 of 17 datasets using a model with orders of magnitude less parameters and pretraining data. On the GenomicBenchmarks, HyenaDNA surpasses SotA on all 8 datasets on average by +9 accuracy points.

  • 13 authors
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Jun 27, 2023 2

PAL: Pluralistic Alignment Framework for Learning from Heterogeneous Preferences

Large foundation models pretrained on raw web-scale data are not readily deployable without additional step of extensive alignment to human preferences. Such alignment is typically done by collecting large amounts of pairwise comparisons from humans ("Do you prefer output A or B?") and learning a reward model or a policy with the Bradley-Terry-Luce (BTL) model as a proxy for a human's underlying implicit preferences. These methods generally suffer from assuming a universal preference shared by all humans, which lacks the flexibility of adapting to plurality of opinions and preferences. In this work, we propose PAL, a framework to model human preference complementary to existing pretraining strategies, which incorporates plurality from the ground up. We propose using the ideal point model as a lens to view alignment using preference comparisons. Together with our novel reformulation and using mixture modeling, our framework captures the plurality of population preferences while simultaneously learning a common preference latent space across different preferences, which can few-shot generalize to new, unseen users. Our approach enables us to use the penultimate-layer representation of large foundation models and simple MLP layers to learn reward functions that are on-par with the existing large state-of-the-art reward models, thereby enhancing efficiency of reward modeling significantly. We show that PAL achieves competitive reward model accuracy compared to strong baselines on 1) Language models with Summary dataset ; 2) Image Generative models with Pick-a-Pic dataset ; 3) A new semisynthetic heterogeneous dataset generated using Anthropic Personas. Finally, our experiments also highlight the shortcoming of current preference datasets that are created using rigid rubrics which wash away heterogeneity, and call for more nuanced data collection approaches.

  • 4 authors
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Jun 12, 2024

Test-Time Anchoring for Discrete Diffusion Posterior Sampling

We study the problem of posterior sampling using pretrained discrete diffusion foundation models, aiming to recover images from noisy measurements without retraining task-specific models. While diffusion models have achieved remarkable success in generative modeling, most advances rely on continuous Gaussian diffusion. In contrast, discrete diffusion offers a unified framework for jointly modeling categorical data such as text and images. Beyond unification, discrete diffusion provides faster inference, finer control, and principled training-free Bayesian inference, making it particularly well-suited for posterior sampling. However, existing approaches to discrete diffusion posterior sampling face severe challenges: derivative-free guidance yields sparse signals, continuous relaxations limit applicability, and split Gibbs samplers suffer from the curse of dimensionality. To overcome these limitations, we introduce Anchored Posterior Sampling (APS) for masked diffusion foundation models, built on two key innovations -- quantized expectation for gradient-like guidance in discrete embedding space, and anchored remasking for adaptive decoding. Our approach achieves state-of-the-art performance among discrete diffusion samplers across linear and nonlinear inverse problems on the standard benchmarks. We further demonstrate the benefits of our approach in training-free stylization and text-guided editing.

  • 7 authors
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Oct 2, 2025 1

VidLA: Video-Language Alignment at Scale

In this paper, we propose VidLA, an approach for video-language alignment at scale. There are two major limitations of previous video-language alignment approaches. First, they do not capture both short-range and long-range temporal dependencies and typically employ complex hierarchical deep network architectures that are hard to integrate with existing pretrained image-text foundation models. To effectively address this limitation, we instead keep the network architecture simple and use a set of data tokens that operate at different temporal resolutions in a hierarchical manner, accounting for the temporally hierarchical nature of videos. By employing a simple two-tower architecture, we are able to initialize our video-language model with pretrained image-text foundation models, thereby boosting the final performance. Second, existing video-language alignment works struggle due to the lack of semantically aligned large-scale training data. To overcome it, we leverage recent LLMs to curate the largest video-language dataset to date with better visual grounding. Furthermore, unlike existing video-text datasets which only contain short clips, our dataset is enriched with video clips of varying durations to aid our temporally hierarchical data tokens in extracting better representations at varying temporal scales. Overall, empirical results show that our proposed approach surpasses state-of-the-art methods on multiple retrieval benchmarks, especially on longer videos, and performs competitively on classification benchmarks.

  • 8 authors
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Mar 21, 2024 1

Lift3D Foundation Policy: Lifting 2D Large-Scale Pretrained Models for Robust 3D Robotic Manipulation

3D geometric information is essential for manipulation tasks, as robots need to perceive the 3D environment, reason about spatial relationships, and interact with intricate spatial configurations. Recent research has increasingly focused on the explicit extraction of 3D features, while still facing challenges such as the lack of large-scale robotic 3D data and the potential loss of spatial geometry. To address these limitations, we propose the Lift3D framework, which progressively enhances 2D foundation models with implicit and explicit 3D robotic representations to construct a robust 3D manipulation policy. Specifically, we first design a task-aware masked autoencoder that masks task-relevant affordance patches and reconstructs depth information, enhancing the 2D foundation model's implicit 3D robotic representation. After self-supervised fine-tuning, we introduce a 2D model-lifting strategy that establishes a positional mapping between the input 3D points and the positional embeddings of the 2D model. Based on the mapping, Lift3D utilizes the 2D foundation model to directly encode point cloud data, leveraging large-scale pretrained knowledge to construct explicit 3D robotic representations while minimizing spatial information loss. In experiments, Lift3D consistently outperforms previous state-of-the-art methods across several simulation benchmarks and real-world scenarios.

  • 11 authors
·
Nov 27, 2024

netFound: Foundation Model for Network Security

Developing generalizable ML-based solutions for disparate learning problems in network security is highly desired. However, despite a rich history of applying ML to network security, most existing solutions lack generalizability. This lack of progress can be attributed to an overreliance on supervised learning techniques and the associated challenges of curating well-specified labeled training data. This paper addresses a fundamental gap by introducing a novel transformer-based network foundation model, netFound. We employ self-supervised learning techniques on abundant, unlabeled network telemetry data for pre-training. This pretrained model can subsequently be fine-tuned to create generalizable learning artifacts for disparate learning tasks, even when using commonly available but challenging labeled datasets that are sparse, noisy, and skewed. To realize this goal, netFound leverages various domain-specific attributes and constraints unique to network data (packet traces) by developing multi-modal embeddings, protocol-aware tokenization, data-driven token composition, and hierarchical transformers. Our results demonstrate that netFound's domain-specific design choices ensure that it (1) effectively captures the hidden networking context in production settings, (2) outperforms four different SOTA methods on five different learning tasks, and (3) is robust to both noisy labels and learning shortcuts -- critical for developing generalizable ML models in practical settings.

  • 5 authors
·
Oct 25, 2023

Prithvi WxC: Foundation Model for Weather and Climate

Triggered by the realization that AI emulators can rival the performance of traditional numerical weather prediction models running on HPC systems, there is now an increasing number of large AI models that address use cases such as forecasting, downscaling, or nowcasting. While the parallel developments in the AI literature focus on foundation models -- models that can be effectively tuned to address multiple, different use cases -- the developments on the weather and climate side largely focus on single-use cases with particular emphasis on mid-range forecasting. We close this gap by introducing Prithvi WxC, a 2.3 billion parameter foundation model developed using 160 variables from the Modern-Era Retrospective Analysis for Research and Applications, Version 2 (MERRA-2). Prithvi WxC employs an encoder-decoder-based architecture, incorporating concepts from various recent transformer models to effectively capture both regional and global dependencies in the input data. The model has been designed to accommodate large token counts to model weather phenomena in different topologies at fine resolutions. Furthermore, it is trained with a mixed objective that combines the paradigms of masked reconstruction with forecasting. We test the model on a set of challenging downstream tasks namely: Autoregressive rollout forecasting, Downscaling, Gravity wave flux parameterization, and Extreme events estimation. The pretrained model with 2.3 billion parameters, along with the associated fine-tuning workflows, has been publicly released as an open-source contribution via Hugging Face.

  • 29 authors
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Sep 20, 2024 4

Toward Foundation Model for Multivariate Wearable Sensing of Physiological Signals

Time-series foundation models excel at tasks like forecasting across diverse data types by leveraging informative waveform representations. Wearable sensing data, however, pose unique challenges due to their variability in patterns and frequency bands, especially for healthcare-related outcomes. The main obstacle lies in crafting generalizable representations that adapt efficiently across heterogeneous sensing configurations and applications. To address this, we propose NormWear, the first multi-modal and ubiquitous foundation model designed to extract generalized and informative representations from wearable sensing data. Specifically, we design a channel-aware attention mechanism with a shared special liaison [CLS] token to detect signal patterns in both intra-sensor and inter-sensors. This helps the model to extract more meaningful information considering both time series themselves and the relationships between input sensors. This helps the model to be widely compatible with various sensors settings. NormWear is pretrained on a diverse set of physiological signals, including PPG, ECG, EEG, GSR, and IMU, from various public datasets. Our model shows exceptional generalizability across 11 public wearable sensing datasets, spanning 18 applications in mental health, body state inference, vital sign estimation, and disease risk evaluation. It consistently outperforms competitive baselines under zero-shot, partial-shot, and full-shot settings, indicating broad applicability in real-world health applications.

  • 4 authors
·
Dec 12, 2024

RedDino: A foundation model for red blood cell analysis

Red blood cells (RBCs) are essential to human health, and their precise morphological analysis is important for diagnosing hematological disorders. Despite the promise of foundation models in medical diagnostics, comprehensive AI solutions for RBC analysis remain scarce. We present RedDino, a self-supervised foundation model designed for RBC image analysis. RedDino uses an RBC-specific adaptation of the DINOv2 self-supervised learning framework and is trained on a curated dataset of 1.25 million RBC images from diverse acquisition modalities and sources. Extensive evaluations show that RedDino outperforms existing state-of-the-art models on RBC shape classification. Through assessments including linear probing and nearest neighbor classification, we confirm its strong feature representations and generalization ability. Our main contributions are: (1) a foundation model tailored for RBC analysis, (2) ablation studies exploring DINOv2 configurations for RBC modeling, and (3) a detailed evaluation of generalization performance. RedDino addresses key challenges in computational hematology by capturing nuanced morphological features, advancing the development of reliable diagnostic tools. The source code and pretrained models for RedDino are available at https://github.com/Snarci/RedDino, and the pretrained models can be downloaded from our Hugging Face collection at https://huggingface.co/collections/Snarcy/reddino-689a13e29241d2e5690202fc

  • 4 authors
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Aug 11, 2025 2

EEGFormer: Towards Transferable and Interpretable Large-Scale EEG Foundation Model

Self-supervised learning has emerged as a highly effective approach in the fields of natural language processing and computer vision. It is also applicable to brain signals such as electroencephalography (EEG) data, given the abundance of available unlabeled data that exist in a wide spectrum of real-world medical applications ranging from seizure detection to wave analysis. The existing works leveraging self-supervised learning on EEG modeling mainly focus on pretraining upon each individual dataset corresponding to a single downstream task, which cannot leverage the power of abundant data, and they may derive sub-optimal solutions with a lack of generalization. Moreover, these methods rely on end-to-end model learning which is not easy for humans to understand. In this paper, we present a novel EEG foundation model, namely EEGFormer, pretrained on large-scale compound EEG data. The pretrained model cannot only learn universal representations on EEG signals with adaptable performance on various downstream tasks but also provide interpretable outcomes of the useful patterns within the data. To validate the effectiveness of our model, we extensively evaluate it on various downstream tasks and assess the performance under different transfer settings. Furthermore, we demonstrate how the learned model exhibits transferable anomaly detection performance and provides valuable interpretability of the acquired patterns via self-supervised learning.

  • 7 authors
·
Jan 11, 2024

ChromFound: Towards A Universal Foundation Model for Single-Cell Chromatin Accessibility Data

The advent of single-cell Assay for Transposase-Accessible Chromatin using sequencing (scATAC-seq) offers an innovative perspective for deciphering regulatory mechanisms by assembling a vast repository of single-cell chromatin accessibility data. While foundation models have achieved significant success in single-cell transcriptomics, there is currently no foundation model for scATAC-seq that supports zero-shot high-quality cell identification and comprehensive multi-omics analysis simultaneously. Key challenges lie in the high dimensionality and sparsity of scATAC-seq data, as well as the lack of a standardized schema for representing open chromatin regions (OCRs). Here, we present ChromFound, a foundation model tailored for scATAC-seq. ChromFound utilizes a hybrid architecture and genome-aware tokenization to effectively capture genome-wide long contexts and regulatory signals from dynamic chromatin landscapes. Pretrained on 1.97 million cells from 30 tissues and 6 disease conditions, ChromFound demonstrates broad applicability across 6 diverse tasks. Notably, it achieves robust zero-shot performance in generating universal cell representations and exhibits excellent transferability in cell type annotation and cross-omics prediction. By uncovering enhancer-gene links undetected by existing computational methods, ChromFound offers a promising framework for understanding disease risk variants in the noncoding genome.

  • 12 authors
·
May 18, 2025

MIRA: Medical Time Series Foundation Model for Real-World Health Data

A unified foundation model for medical time series -- pretrained on open access and ethics board-approved medical corpora -- offers the potential to reduce annotation burdens, minimize model customization, and enable robust transfer across clinical institutions, modalities, and tasks, particularly in data-scarce or privacy-constrained environments. However, existing generalist time series foundation models struggle to handle medical time series data due to their inherent challenges, including irregular intervals, heterogeneous sampling rates, and frequent missing values. To address these challenges, we introduce MIRA, a unified foundation model specifically designed for medical time series forecasting. MIRA incorporates a Continuous-Time Rotary Positional Encoding that enables fine-grained modeling of variable time intervals, a frequency-specific mixture-of-experts layer that routes computation across latent frequency regimes to further promote temporal specialization, and a Continuous Dynamics Extrapolation Block based on Neural ODE that models the continuous trajectory of latent states, enabling accurate forecasting at arbitrary target timestamps. Pretrained on a large-scale and diverse medical corpus comprising over 454 billion time points collect from publicly available datasets, MIRA achieves reductions in forecasting errors by an average of 10% and 7% in out-of-distribution and in-distribution scenarios, respectively, when compared to other zero-shot and fine-tuned baselines. We also introduce a comprehensive benchmark spanning multiple downstream clinical tasks, establishing a foundation for future research in medical time series modeling.

  • 11 authors
·
Jun 9, 2025

Arc2Face: A Foundation Model of Human Faces

This paper presents Arc2Face, an identity-conditioned face foundation model, which, given the ArcFace embedding of a person, can generate diverse photo-realistic images with an unparalleled degree of face similarity than existing models. Despite previous attempts to decode face recognition features into detailed images, we find that common high-resolution datasets (e.g. FFHQ) lack sufficient identities to reconstruct any subject. To that end, we meticulously upsample a significant portion of the WebFace42M database, the largest public dataset for face recognition (FR). Arc2Face builds upon a pretrained Stable Diffusion model, yet adapts it to the task of ID-to-face generation, conditioned solely on ID vectors. Deviating from recent works that combine ID with text embeddings for zero-shot personalization of text-to-image models, we emphasize on the compactness of FR features, which can fully capture the essence of the human face, as opposed to hand-crafted prompts. Crucially, text-augmented models struggle to decouple identity and text, usually necessitating some description of the given face to achieve satisfactory similarity. Arc2Face, however, only needs the discriminative features of ArcFace to guide the generation, offering a robust prior for a plethora of tasks where ID consistency is of paramount importance. As an example, we train a FR model on synthetic images from our model and achieve superior performance to existing synthetic datasets.

  • 6 authors
·
Mar 18, 2024

Poseidon: Efficient Foundation Models for PDEs

We introduce Poseidon, a foundation model for learning the solution operators of PDEs. It is based on a multiscale operator transformer, with time-conditioned layer norms that enable continuous-in-time evaluations. A novel training strategy leveraging the semi-group property of time-dependent PDEs to allow for significant scaling-up of the training data is also proposed. Poseidon is pretrained on a diverse, large scale dataset for the governing equations of fluid dynamics. It is then evaluated on a suite of 15 challenging downstream tasks that include a wide variety of PDE types and operators. We show that Poseidon exhibits excellent performance across the board by outperforming baselines significantly, both in terms of sample efficiency and accuracy. Poseidon also generalizes very well to new physics that is not seen during pretraining. Moreover, Poseidon scales with respect to model and data size, both for pretraining and for downstream tasks. Taken together, our results showcase the surprising ability of Poseidon to learn effective representations from a very small set of PDEs during pretraining in order to generalize well to unseen and unrelated PDEs downstream, demonstrating its potential as an effective, general purpose PDE foundation model. Finally, the Poseidon model as well as underlying pretraining and downstream datasets are open sourced, with code being available at https://github.com/camlab-ethz/poseidon and pretrained models and datasets at https://huggingface.co/camlab-ethz.

  • 7 authors
·
May 29, 2024

Yi: Open Foundation Models by 01.AI

We introduce the Yi model family, a series of language and multimodal models that demonstrate strong multi-dimensional capabilities. The Yi model family is based on 6B and 34B pretrained language models, then we extend them to chat models, 200K long context models, depth-upscaled models, and vision-language models. Our base models achieve strong performance on a wide range of benchmarks like MMLU, and our finetuned chat models deliver strong human preference rate on major evaluation platforms like AlpacaEval and Chatbot Arena. Building upon our scalable super-computing infrastructure and the classical transformer architecture, we attribute the performance of Yi models primarily to its data quality resulting from our data-engineering efforts. For pretraining, we construct 3.1 trillion tokens of English and Chinese corpora using a cascaded data deduplication and quality filtering pipeline. For finetuning, we polish a small scale (less than 10K) instruction dataset over multiple iterations such that every single instance has been verified directly by our machine learning engineers. For vision-language, we combine the chat language model with a vision transformer encoder and train the model to align visual representations to the semantic space of the language model. We further extend the context length to 200K through lightweight continual pretraining and demonstrate strong needle-in-a-haystack retrieval performance. We show that extending the depth of the pretrained checkpoint through continual pretraining further improves performance. We believe that given our current results, continuing to scale up model parameters using thoroughly optimized data will lead to even stronger frontier models.

  • 31 authors
·
Mar 7, 2024 3

SpectralGPT: Spectral Foundation Model

The foundation model has recently garnered significant attention due to its potential to revolutionize the field of visual representation learning in a self-supervised manner. While most foundation models are tailored to effectively process RGB images for various visual tasks, there is a noticeable gap in research focused on spectral data, which offers valuable information for scene understanding, especially in remote sensing (RS) applications. To fill this gap, we created for the first time a universal RS foundation model, named SpectralGPT, which is purpose-built to handle spectral RS images using a novel 3D generative pretrained transformer (GPT). Compared to existing foundation models, SpectralGPT 1) accommodates input images with varying sizes, resolutions, time series, and regions in a progressive training fashion, enabling full utilization of extensive RS big data; 2) leverages 3D token generation for spatial-spectral coupling; 3) captures spectrally sequential patterns via multi-target reconstruction; 4) trains on one million spectral RS images, yielding models with over 600 million parameters. Our evaluation highlights significant performance improvements with pretrained SpectralGPT models, signifying substantial potential in advancing spectral RS big data applications within the field of geoscience across four downstream tasks: single/multi-label scene classification, semantic segmentation, and change detection.

  • 14 authors
·
Nov 13, 2023