A Knowledge-enhanced Pathology Vision-language Foundation Model for Cancer Diagnosis

Deep learning has enabled the development of highly robust foundation models for various pathological tasks across diverse diseases and patient cohorts. Among these models, vision-language pre-training, which leverages large-scale paired data to align pathology image and text embedding spaces, and provides a novel zero-shot paradigm for downstream tasks. However, existing models have been primarily data-driven and lack the incorporation of domain-specific knowledge, which limits their performance in cancer diagnosis, especially for rare tumor subtypes. To address this limitation, we establish a Knowledge-enhanced Pathology (KEEP) foundation model that harnesses disease knowledge to facilitate vision-language pre-training. Specifically, we first construct a disease knowledge graph (KG) that covers 11,454 human diseases with 139,143 disease attributes, including synonyms, definitions, and hypernym relations. We then systematically reorganize the millions of publicly available noisy pathology image-text pairs, into 143K well-structured semantic groups linked through the hierarchical relations of the disease KG. To derive more nuanced image and text representations, we propose a novel knowledge-enhanced vision-language pre-training approach that integrates disease knowledge into the alignment within hierarchical semantic groups instead of unstructured image-text pairs. Validated on 18 diverse benchmarks with more than 14,000 whole slide images (WSIs), KEEP achieves state-of-the-art performance in zero-shot cancer diagnostic tasks. Notably, for cancer detection, KEEP demonstrates an average sensitivity of 89.8% at a specificity of 95.0% across 7 cancer types. For cancer subtyping, KEEP achieves a median balanced accuracy of 0.456 in subtyping 30 rare brain cancers, indicating strong generalizability for diagnosing rare tumors.

POINTS1.5: Building a Vision-Language Model towards Real World Applications

Vision-language models have made significant strides recently, demonstrating superior performance across a range of tasks, e.g. optical character recognition and complex diagram analysis. Building on this trend, we introduce a new vision-language model, POINTS1.5, designed to excel in various real-world applications. POINTS1.5 is an enhancement of POINTS1.0 and incorporates several key innovations: i) We replace the original CLIP vision encoder, which had a fixed image resolution, with a NaViT-style vision encoder that supports native dynamic high resolution. This allows POINTS1.5 to process images of any resolution without needing to split them into tiles. ii) We add bilingual support to POINTS1.5, significantly enhancing its capability in Chinese. Due to the scarcity of open-source Chinese datasets for vision-language models, we collect numerous images from the Internet and annotate them using a combination of manual and automatic methods. iii) We propose a set of rigorous filtering methods for visual instruction tuning datasets. We comprehensively evaluate all these filtering methods, and choose the most effective ones to obtain the final visual instruction tuning set. Thanks to these innovations, POINTS1.5 significantly outperforms POINTS1.0 and demonstrates strong performance across a range of real-world applications. Notably, POINTS1.5-7B is trained on fewer than 4 billion tokens and ranks first on the OpenCompass leaderboard among models with fewer than 10 billion parameters

DEIM: DETR with Improved Matching for Fast Convergence

We introduce DEIM, an innovative and efficient training framework designed to accelerate convergence in real-time object detection with Transformer-based architectures (DETR). To mitigate the sparse supervision inherent in one-to-one (O2O) matching in DETR models, DEIM employs a Dense O2O matching strategy. This approach increases the number of positive samples per image by incorporating additional targets, using standard data augmentation techniques. While Dense O2O matching speeds up convergence, it also introduces numerous low-quality matches that could affect performance. To address this, we propose the Matchability-Aware Loss (MAL), a novel loss function that optimizes matches across various quality levels, enhancing the effectiveness of Dense O2O. Extensive experiments on the COCO dataset validate the efficacy of DEIM. When integrated with RT-DETR and D-FINE, it consistently boosts performance while reducing training time by 50%. Notably, paired with RT-DETRv2, DEIM achieves 53.2% AP in a single day of training on an NVIDIA 4090 GPU. Additionally, DEIM-trained real-time models outperform leading real-time object detectors, with DEIM-D-FINE-L and DEIM-D-FINE-X achieving 54.7% and 56.5% AP at 124 and 78 FPS on an NVIDIA T4 GPU, respectively, without the need for additional data. We believe DEIM sets a new baseline for advancements in real-time object detection. Our code and pre-trained models are available at https://github.com/ShihuaHuang95/DEIM.

AutoMIR: Effective Zero-Shot Medical Information Retrieval without Relevance Labels

Medical information retrieval (MIR) is essential for retrieving relevant medical knowledge from diverse sources, including electronic health records, scientific literature, and medical databases. However, achieving effective zero-shot dense retrieval in the medical domain poses substantial challenges due to the lack of relevance-labeled data. In this paper, we introduce a novel approach called Self-Learning Hypothetical Document Embeddings (SL-HyDE) to tackle this issue. SL-HyDE leverages large language models (LLMs) as generators to generate hypothetical documents based on a given query. These generated documents encapsulate key medical context, guiding a dense retriever in identifying the most relevant documents. The self-learning framework progressively refines both pseudo-document generation and retrieval, utilizing unlabeled medical corpora without requiring any relevance-labeled data. Additionally, we present the Chinese Medical Information Retrieval Benchmark (CMIRB), a comprehensive evaluation framework grounded in real-world medical scenarios, encompassing five tasks and ten datasets. By benchmarking ten models on CMIRB, we establish a rigorous standard for evaluating medical information retrieval systems. Experimental results demonstrate that SL-HyDE significantly surpasses existing methods in retrieval accuracy while showcasing strong generalization and scalability across various LLM and retriever configurations. CMIRB data and evaluation code are publicly available at: https://github.com/CMIRB-benchmark/CMIRB.

POINTS: Improving Your Vision-language Model with Affordable Strategies

In recent years, vision-language models have made significant strides, excelling in tasks like optical character recognition and geometric problem-solving. However, several critical issues remain: 1) Proprietary models often lack transparency about their architectures, while open-source models need more detailed ablations of their training strategies. 2) Pre-training data in open-source works is under-explored, with datasets added empirically, making the process cumbersome. 3) Fine-tuning often focuses on adding datasets, leading to diminishing returns. To address these issues, we propose the following contributions: 1) We trained a robust baseline model using the latest advancements in vision-language models, introducing effective improvements and conducting comprehensive ablation and validation for each technique. 2) Inspired by recent work on large language models, we filtered pre-training data using perplexity, selecting the lowest perplexity data for training. This approach allowed us to train on a curated 1M dataset, achieving competitive performance. 3) During visual instruction tuning, we used model soup on different datasets when adding more datasets yielded marginal improvements. These innovations resulted in a 9B parameter model that performs competitively with state-of-the-art models. Our strategies are efficient and lightweight, making them easily adoptable by the community.

Leveraging Web-Crawled Data for High-Quality Fine-Tuning

Most large language models are fine-tuned using either expensive human-annotated data or GPT-4 generated data which cannot guarantee performance in certain domains. We argue that although the web-crawled data often has formatting errors causing semantic inaccuracies, it can still serve as a valuable source for high-quality supervised fine-tuning in specific domains without relying on advanced models like GPT-4. To this end, we create a paired training dataset automatically by aligning web-crawled data with a smaller set of high-quality data. By training a language model on this dataset, we can convert web data with irregular formats into high-quality ones. Our experiments show that training with the model-transformed data yields better results, surpassing training with only high-quality data by an average score of 9.4% in Chinese math problems. Additionally, our 7B model outperforms several open-source models larger than 32B and surpasses well-known closed-source models such as GPT-3.5, highlighting the efficacy of our approach.

Integrated Intention Prediction and Decision-Making with Spectrum Attention Net and Proximal Policy Optimization

For autonomous driving in highly dynamic environments, it is anticipated to predict the future behaviors of surrounding vehicles (SVs) and make safe and effective decisions. However, modeling the inherent coupling effect between the prediction and decision-making modules has been a long-standing challenge, especially when there is a need to maintain appropriate computational efficiency. To tackle these problems, we propose a novel integrated intention prediction and decision-making approach, which explicitly models the coupling relationship and achieves efficient computation. Specifically, a spectrum attention net is designed to predict the intentions of SVs by capturing the trends of each frequency component over time and their interrelations. Fast computation of the intention prediction module is attained as the predicted intentions are not decoded to trajectories in the executing process. Furthermore, the proximal policy optimization (PPO) algorithm is employed to address the non-stationary problem in the framework through a modest policy update enabled by a clipping mechanism within its objective function. On the basis of these developments, the intention prediction and decision-making modules are integrated through joint learning. Experiments are conducted in representative traffic scenarios, and the results reveal that the proposed integrated framework demonstrates superior performance over several deep reinforcement learning (DRL) baselines in terms of success rate, efficiency, and safety in driving tasks.

Unlearning Concepts in Diffusion Model via Concept Domain Correction and Concept Preserving Gradient

Current text-to-image diffusion models have achieved groundbreaking results in image generation tasks. However, the unavoidable inclusion of sensitive information during pre-training introduces significant risks such as copyright infringement and privacy violations in the generated images. Machine Unlearning (MU) provides a effective way to the sensitive concepts captured by the model, has been shown to be a promising approach to addressing these issues. Nonetheless, existing MU methods for concept erasure encounter two primary bottlenecks: 1) generalization issues, where concept erasure is effective only for the data within the unlearn set, and prompts outside the unlearn set often still result in the generation of sensitive concepts; and 2) utility drop, where erasing target concepts significantly degrades the model's performance. To this end, this paper first proposes a concept domain correction framework for unlearning concepts in diffusion models. By aligning the output domains of sensitive concepts and anchor concepts through adversarial training, we enhance the generalizability of the unlearning results. Secondly, we devise a concept-preserving scheme based on gradient surgery. This approach alleviates the parts of the unlearning gradient that contradict the relearning gradient, ensuring that the process of unlearning minimally disrupts the model's performance. Finally, extensive experiments validate the effectiveness of our model, demonstrating our method's capability to address the challenges of concept unlearning in diffusion models while preserving model utility.

Rethinking Overlooked Aspects in Vision-Language Models

Recent advancements in large vision-language models (LVLMs), such as GPT4-V and LLaVA, have been substantial. LLaVA's modular architecture, in particular, offers a blend of simplicity and efficiency. Recent works mainly focus on introducing more pre-training and instruction tuning data to improve model's performance. This paper delves into the often-neglected aspects of data efficiency during pre-training and the selection process for instruction tuning datasets. Our research indicates that merely increasing the size of pre-training data does not guarantee improved performance and may, in fact, lead to its degradation. Furthermore, we have established a pipeline to pinpoint the most efficient instruction tuning (SFT) dataset, implying that not all SFT data utilized in existing studies are necessary. The primary objective of this paper is not to introduce a state-of-the-art model, but rather to serve as a roadmap for future research, aiming to optimize data usage during pre-training and fine-tuning processes to enhance the performance of vision-language models.

Knowledge-enhanced Visual-Language Pretraining for Computational Pathology

In this paper, we consider the problem of visual representation learning for computational pathology, by exploiting large-scale image-text pairs gathered from public resources, along with the domain specific knowledge in pathology. Specifically, we make the following contributions: (i) We curate a pathology knowledge tree that consists of 50,470 informative attributes for 4,718 diseases requiring pathology diagnosis from 32 human tissues. To our knowledge, this is the first comprehensive structured pathology knowledge base; (ii) We develop a knowledge-enhanced visual-language pretraining approach, where we first project pathology-specific knowledge into latent embedding space via language model, and use it to guide the visual representation learning; (iii) We conduct thorough experiments to validate the effectiveness of our proposed components, demonstrating significant performance improvement on various downstream tasks, including cross-modal retrieval, zero-shot classification on pathology patches, and zero-shot tumor subtyping on whole slide images (WSIs). All codes, models and the pathology knowledge tree will be released to the research community