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Mar 14

DINO-X: A Unified Vision Model for Open-World Object Detection and Understanding

In this paper, we introduce DINO-X, which is a unified object-centric vision model developed by IDEA Research with the best open-world object detection performance to date. DINO-X employs the same Transformer-based encoder-decoder architecture as Grounding DINO 1.5 to pursue an object-level representation for open-world object understanding. To make long-tailed object detection easy, DINO-X extends its input options to support text prompt, visual prompt, and customized prompt. With such flexible prompt options, we develop a universal object prompt to support prompt-free open-world detection, making it possible to detect anything in an image without requiring users to provide any prompt. To enhance the model's core grounding capability, we have constructed a large-scale dataset with over 100 million high-quality grounding samples, referred to as Grounding-100M, for advancing the model's open-vocabulary detection performance. Pre-training on such a large-scale grounding dataset leads to a foundational object-level representation, which enables DINO-X to integrate multiple perception heads to simultaneously support multiple object perception and understanding tasks, including detection, segmentation, pose estimation, object captioning, object-based QA, etc. Experimental results demonstrate the superior performance of DINO-X. Specifically, the DINO-X Pro model achieves 56.0 AP, 59.8 AP, and 52.4 AP on the COCO, LVIS-minival, and LVIS-val zero-shot object detection benchmarks, respectively. Notably, it scores 63.3 AP and 56.5 AP on the rare classes of LVIS-minival and LVIS-val benchmarks, both improving the previous SOTA performance by 5.8 AP. Such a result underscores its significantly improved capacity for recognizing long-tailed objects.

Rare Disease Differential Diagnosis with Large Language Models at Scale: From Abdominal Actinomycosis to Wilson's Disease

Large language models (LLMs) have demonstrated impressive capabilities in disease diagnosis. However, their effectiveness in identifying rarer diseases, which are inherently more challenging to diagnose, remains an open question. Rare disease performance is critical with the increasing use of LLMs in healthcare settings. This is especially true if a primary care physician needs to make a rarer prognosis from only a patient conversation so that they can take the appropriate next step. To that end, several clinical decision support systems are designed to support providers in rare disease identification. Yet their utility is limited due to their lack of knowledge of common disorders and difficulty of use. In this paper, we propose RareScale to combine the knowledge LLMs with expert systems. We use jointly use an expert system and LLM to simulate rare disease chats. This data is used to train a rare disease candidate predictor model. Candidates from this smaller model are then used as additional inputs to black-box LLM to make the final differential diagnosis. Thus, RareScale allows for a balance between rare and common diagnoses. We present results on over 575 rare diseases, beginning with Abdominal Actinomycosis and ending with Wilson's Disease. Our approach significantly improves the baseline performance of black-box LLMs by over 17% in Top-5 accuracy. We also find that our candidate generation performance is high (e.g. 88.8% on gpt-4o generated chats).

Boosting EfficientNets Ensemble Performance via Pseudo-Labels and Synthetic Images by pix2pixHD for Infection and Ischaemia Classification in Diabetic Foot Ulcers

Diabetic foot ulcers are a common manifestation of lesions on the diabetic foot, a syndrome acquired as a long-term complication of diabetes mellitus. Accompanying neuropathy and vascular damage promote acquisition of pressure injuries and tissue death due to ischaemia. Affected areas are prone to infections, hindering the healing progress. The research at hand investigates an approach on classification of infection and ischaemia, conducted as part of the Diabetic Foot Ulcer Challenge (DFUC) 2021. Different models of the EfficientNet family are utilized in ensembles. An extension strategy for the training data is applied, involving pseudo-labeling for unlabeled images, and extensive generation of synthetic images via pix2pixHD to cope with severe class imbalances. The resulting extended training dataset features 8.68 times the size of the baseline and shows a real to synthetic image ratio of 1:3. Performances of models and ensembles trained on the baseline and extended training dataset are compared. Synthetic images featured a broad qualitative variety. Results show that models trained on the extended training dataset as well as their ensemble benefit from the large extension. F1-Scores for rare classes receive outstanding boosts, while those for common classes are either not harmed or boosted moderately. A critical discussion concretizes benefits and identifies limitations, suggesting improvements. The work concludes that classification performance of individual models as well as that of ensembles can be boosted utilizing synthetic images. Especially performance for rare classes benefits notably.

Predicting Rare Events by Shrinking Towards Proportional Odds

Training classifiers is difficult with severe class imbalance, but many rare events are the culmination of a sequence with much more common intermediate outcomes. For example, in online marketing a user first sees an ad, then may click on it, and finally may make a purchase; estimating the probability of purchases is difficult because of their rarity. We show both theoretically and through data experiments that the more abundant data in earlier steps may be leveraged to improve estimation of probabilities of rare events. We present PRESTO, a relaxation of the proportional odds model for ordinal regression. Instead of estimating weights for one separating hyperplane that is shifted by separate intercepts for each of the estimated Bayes decision boundaries between adjacent pairs of categorical responses, we estimate separate weights for each of these transitions. We impose an L1 penalty on the differences between weights for the same feature in adjacent weight vectors in order to shrink towards the proportional odds model. We prove that PRESTO consistently estimates the decision boundary weights under a sparsity assumption. Synthetic and real data experiments show that our method can estimate rare probabilities in this setting better than both logistic regression on the rare category, which fails to borrow strength from more abundant categories, and the proportional odds model, which is too inflexible.

RareBench: Can LLMs Serve as Rare Diseases Specialists?

Generalist Large Language Models (LLMs), such as GPT-4, have shown considerable promise in various domains, including medical diagnosis. Rare diseases, affecting approximately 300 million people worldwide, often have unsatisfactory clinical diagnosis rates primarily due to a lack of experienced physicians and the complexity of differentiating among many rare diseases. In this context, recent news such as "ChatGPT correctly diagnosed a 4-year-old's rare disease after 17 doctors failed" underscore LLMs' potential, yet underexplored, role in clinically diagnosing rare diseases. To bridge this research gap, we introduce RareBench, a pioneering benchmark designed to systematically evaluate the capabilities of LLMs on 4 critical dimensions within the realm of rare diseases. Meanwhile, we have compiled the largest open-source dataset on rare disease patients, establishing a benchmark for future studies in this domain. To facilitate differential diagnosis of rare diseases, we develop a dynamic few-shot prompt methodology, leveraging a comprehensive rare disease knowledge graph synthesized from multiple knowledge bases, significantly enhancing LLMs' diagnostic performance. Moreover, we present an exhaustive comparative study of GPT-4's diagnostic capabilities against those of specialist physicians. Our experimental findings underscore the promising potential of integrating LLMs into the clinical diagnostic process for rare diseases. This paves the way for exciting possibilities in future advancements in this field.

Subclass-balancing Contrastive Learning for Long-tailed Recognition

Long-tailed recognition with imbalanced class distribution naturally emerges in practical machine learning applications. Existing methods such as data reweighing, resampling, and supervised contrastive learning enforce the class balance with a price of introducing imbalance between instances of head class and tail class, which may ignore the underlying rich semantic substructures of the former and exaggerate the biases in the latter. We overcome these drawbacks by a novel ``subclass-balancing contrastive learning (SBCL)'' approach that clusters each head class into multiple subclasses of similar sizes as the tail classes and enforce representations to capture the two-layer class hierarchy between the original classes and their subclasses. Since the clustering is conducted in the representation space and updated during the course of training, the subclass labels preserve the semantic substructures of head classes. Meanwhile, it does not overemphasize tail class samples, so each individual instance contribute to the representation learning equally. Hence, our method achieves both the instance- and subclass-balance, while the original class labels are also learned through contrastive learning among subclasses from different classes. We evaluate SBCL over a list of long-tailed benchmark datasets and it achieves the state-of-the-art performance. In addition, we present extensive analyses and ablation studies of SBCL to verify its advantages.

UDKAG: Augmenting Large Vision-Language Models with Up-to-Date Knowledge

Large vision-language models (LVLMs) are ignorant of the up-to-date knowledge, such as LLaVA series, because they cannot be updated frequently due to the large amount of resources required, and therefore fail in many cases. For example, if a LVLM was released on January 2024, and it wouldn't know the detailed plot of the new movie Dune 2, which wasn't released until February 2024. To solve the problem, a promising solution is to provide LVLMs with up-to-date knowledge via internet search during inference, i.e., internet-augmented generation (IAG), which is already integrated in some closed-source commercial LVLMs such as GPT-4V. However, the specific mechanics underpinning them remain a mystery. In this paper, we propose a plug-and-play framework, for augmenting existing LVLMs in handling visual question answering (VQA) about up-to-date knowledge, dubbed UDKAG. A hierarchical filtering model is trained to effectively and efficiently find the most helpful content from the websites returned by a search engine to prompt LVLMs with up-to-date knowledge. To train the model and evaluate our framework's performance, we propose a pipeline to automatically generate news-related VQA samples to construct a dataset, dubbed UDK-VQA. A multi-model voting mechanism is introduced to label the usefulness of website/content for VQA samples to construct the training set. Experimental results demonstrate the effectiveness of our framework, outperforming GPT-4V by about 25% in accuracy.

SegFace: Face Segmentation of Long-Tail Classes

Face parsing refers to the semantic segmentation of human faces into key facial regions such as eyes, nose, hair, etc. It serves as a prerequisite for various advanced applications, including face editing, face swapping, and facial makeup, which often require segmentation masks for classes like eyeglasses, hats, earrings, and necklaces. These infrequently occurring classes are called long-tail classes, which are overshadowed by more frequently occurring classes known as head classes. Existing methods, primarily CNN-based, tend to be dominated by head classes during training, resulting in suboptimal representation for long-tail classes. Previous works have largely overlooked the problem of poor segmentation performance of long-tail classes. To address this issue, we propose SegFace, a simple and efficient approach that uses a lightweight transformer-based model which utilizes learnable class-specific tokens. The transformer decoder leverages class-specific tokens, allowing each token to focus on its corresponding class, thereby enabling independent modeling of each class. The proposed approach improves the performance of long-tail classes, thereby boosting overall performance. To the best of our knowledge, SegFace is the first work to employ transformer models for face parsing. Moreover, our approach can be adapted for low-compute edge devices, achieving 95.96 FPS. We conduct extensive experiments demonstrating that SegFace significantly outperforms previous state-of-the-art models, achieving a mean F1 score of 88.96 (+2.82) on the CelebAMask-HQ dataset and 93.03 (+0.65) on the LaPa dataset. Code: https://github.com/Kartik-3004/SegFace

Enhancing Code Generation for Low-Resource Languages: No Silver Bullet

The advent of Large Language Models (LLMs) has significantly advanced the field of automated code generation. LLMs rely on large and diverse datasets to learn syntax, semantics, and usage patterns of programming languages. For low-resource languages (i.e., niche programming languages characterized by the scarcity of training data), the limited availability of such data hampers the models' ability to generalize effectively, resulting in poorer code generation performance as compared to high-resource languages. For this reason, there is a quest for techniques able to close this performance gap. We present an empirical study investigating the effectiveness of several approaches for boosting LLMs' performance on low-resource languages, namely: (i) a classic fine-tuning, which is however capped in size by the scarcity of training data; (ii) three variants of in-context learning, with prompts crafted to provide the LLM with additional information about the low-resource language (e.g., few-shot examples showcasing features of the targeted language); and (iii) a pre-training objective teaching the model how to translate between high- and low-resource languages. The context of our study are two low-resource languages (R and Racket) and six LLMs having different architectures and sizes. Our findings reveal that a fine-tuning is usually the best choice for smaller LLMs, possibly due to the fact that even a small dataset is sufficient to train their limited number of parameters. With the increase in size of the models, in-context learning becomes more and more effective, representing a safe and cheap bet (i.e., it always helps, but with different magnitudes). Differently, very large LLMs may deteriorate their performance on low-resource languages when fine-tuning is performed, possibly due to the lack of enough data needed to effectively update their weights.

Exploring Multimodal Large Language Models for Radiology Report Error-checking

This paper proposes one of the first clinical applications of multimodal large language models (LLMs) as an assistant for radiologists to check errors in their reports. We created an evaluation dataset from two real-world radiology datasets (MIMIC-CXR and IU-Xray), with 1,000 subsampled reports each. A subset of original reports was modified to contain synthetic errors by introducing various type of mistakes. The evaluation contained two difficulty levels: SIMPLE for binary error-checking and COMPLEX for identifying error types. LLaVA (Large Language and Visual Assistant) variant models, including our instruction-tuned model, were used for the evaluation. Additionally, a domain expert evaluation was conducted on a small test set. At the SIMPLE level, the LLaVA v1.5 model outperformed other publicly available models. Instruction tuning significantly enhanced performance by 47.4% and 25.4% on MIMIC-CXR and IU-Xray data, respectively. The model also surpassed the domain experts accuracy in the MIMIC-CXR dataset by 1.67%. Notably, among the subsets (N=21) of the test set where a clinician did not achieve the correct conclusion, the LLaVA ensemble mode correctly identified 71.4% of these cases. This study marks a promising step toward utilizing multi-modal LLMs to enhance diagnostic accuracy in radiology. The ensemble model demonstrated comparable performance to clinicians, even capturing errors overlooked by humans. Nevertheless, future work is needed to improve the model ability to identify the types of inconsistency.

The Neglected Tails of Vision-Language Models

Vision-language models (VLMs) excel in zero-shot recognition but their performance varies greatly across different visual concepts. For example, although CLIP achieves impressive accuracy on ImageNet (60-80%), its performance drops below 10% for more than ten concepts like night snake, presumably due to their limited presence in the pretraining data. However, measuring the frequency of concepts in VLMs' large-scale datasets is challenging. We address this by using large language models (LLMs) to count the number of pretraining texts that contain synonyms of these concepts. Our analysis confirms that popular datasets, such as LAION, exhibit a long-tailed concept distribution, yielding biased performance in VLMs. We also find that downstream applications of VLMs, including visual chatbots (e.g., GPT-4V) and text-to-image models (e.g., Stable Diffusion), often fail to recognize or generate images of rare concepts identified by our method. To mitigate the imbalanced performance of zero-shot VLMs, we propose REtrieval-Augmented Learning (REAL). First, instead of prompting VLMs using the original class names, REAL uses their most frequent synonyms found in pretraining texts. This simple change already outperforms costly human-engineered and LLM-enriched prompts over nine benchmark datasets. Second, REAL trains a linear classifier on a small yet balanced set of pretraining data retrieved using concept synonyms. REAL surpasses the previous zero-shot SOTA, using 400x less storage and 10,000x less training time!

Zebra-Llama: A Context-Aware Large Language Model for Democratizing Rare Disease Knowledge

Rare diseases present unique challenges in healthcare, often suffering from delayed diagnosis and fragmented information landscapes. The scarcity of reliable knowledge in these conditions poses a distinct challenge for Large Language Models (LLMs) in supporting clinical management and delivering precise patient information underscoring the need for focused training on these 'zebra' cases. We present Zebra-Llama, a specialized context-aware language model with high precision Retrieval Augmented Generation (RAG) capability, focusing on Ehlers-Danlos Syndrome (EDS) as our case study. EDS, affecting 1 in 5,000 individuals, exemplifies the complexities of rare diseases with its diverse symptoms, multiple subtypes, and evolving diagnostic criteria. By implementing a novel context-aware fine-tuning methodology trained on questions derived from medical literature, patient experiences, and clinical resources, along with expertly curated responses, Zebra-Llama demonstrates unprecedented capabilities in handling EDS-related queries. On a test set of real-world questions collected from EDS patients and clinicians, medical experts evaluated the responses generated by both models, revealing Zebra-Llama's substantial improvements over base model (Llama 3.1-8B-Instruct) in thoroughness (77.5% vs. 70.1%), accuracy (83.0% vs. 78.8%), clarity (74.7% vs. 72.0%) and citation reliability (70.6% vs. 52.3%). Released as an open-source resource, Zebra-Llama not only provides more accessible and reliable EDS information but also establishes a framework for developing specialized AI solutions for other rare conditions. This work represents a crucial step towards democratizing expert-level knowledge in rare disease management, potentially transforming how healthcare providers and patients navigate the complex landscape of rare diseases.

COCO is "ALL'' You Need for Visual Instruction Fine-tuning

Multi-modal Large Language Models (MLLMs) are increasingly prominent in the field of artificial intelligence. Visual instruction fine-tuning (IFT) is a vital process for aligning MLLMs' output with user's intentions. High-quality and diversified instruction following data is the key to this fine-tuning process. Recent studies propose to construct visual IFT datasets through a multifaceted approach: transforming existing datasets with rule-based templates, employing GPT-4 for rewriting annotations, and utilizing GPT-4V for visual dataset pseudo-labeling. LLaVA-1.5 adopted similar approach and construct LLaVA-mix-665k, which is one of the simplest, most widely used, yet most effective IFT datasets today. Notably, when properly fine-tuned with this dataset, MLLMs can achieve state-of-the-art performance on several benchmarks. However, we noticed that models trained with this dataset often struggle to follow user instructions properly in multi-round dialog. In addition, tradition caption and VQA evaluation benchmarks, with their closed-form evaluation structure, are not fully equipped to assess the capabilities of modern open-ended generative MLLMs. This problem is not unique to the LLaVA-mix-665k dataset, but may be a potential issue in all IFT datasets constructed from image captioning or VQA sources, though the extent of this issue may vary. We argue that datasets with diverse and high-quality detailed instruction following annotations are essential and adequate for MLLMs IFT. In this work, we establish a new IFT dataset, with images sourced from the COCO dataset along with more diverse instructions. Our experiments show that when fine-tuned with out proposed dataset, MLLMs achieve better performance on open-ended evaluation benchmarks in both single-round and multi-round dialog setting.

Molecular-driven Foundation Model for Oncologic Pathology

Foundation models are reshaping computational pathology by enabling transfer learning, where models pre-trained on vast datasets can be adapted for downstream diagnostic, prognostic, and therapeutic response tasks. Despite these advances, foundation models are still limited in their ability to encode the entire gigapixel whole-slide images without additional training and often lack complementary multimodal data. Here, we introduce Threads, a slide-level foundation model capable of generating universal representations of whole-slide images of any size. Threads was pre-trained using a multimodal learning approach on a diverse cohort of 47,171 hematoxylin and eosin (H&E)-stained tissue sections, paired with corresponding genomic and transcriptomic profiles - the largest such paired dataset to be used for foundation model development to date. This unique training paradigm enables Threads to capture the tissue's underlying molecular composition, yielding powerful representations applicable to a wide array of downstream tasks. In extensive benchmarking across 54 oncology tasks, including clinical subtyping, grading, mutation prediction, immunohistochemistry status determination, treatment response prediction, and survival prediction, Threads outperformed all baselines while demonstrating remarkable generalizability and label efficiency. It is particularly well suited for predicting rare events, further emphasizing its clinical utility. We intend to make the model publicly available for the broader community.

Learning in Imperfect Environment: Multi-Label Classification with Long-Tailed Distribution and Partial Labels

Conventional multi-label classification (MLC) methods assume that all samples are fully labeled and identically distributed. Unfortunately, this assumption is unrealistic in large-scale MLC data that has long-tailed (LT) distribution and partial labels (PL). To address the problem, we introduce a novel task, Partial labeling and Long-Tailed Multi-Label Classification (PLT-MLC), to jointly consider the above two imperfect learning environments. Not surprisingly, we find that most LT-MLC and PL-MLC approaches fail to solve the PLT-MLC, resulting in significant performance degradation on the two proposed PLT-MLC benchmarks. Therefore, we propose an end-to-end learning framework: COrrection rightarrow ModificatIon rightarrow balanCe, abbreviated as \method{}. Our bootstrapping philosophy is to simultaneously correct the missing labels (Correction) with convinced prediction confidence over a class-aware threshold and to learn from these recall labels during training. We next propose a novel multi-focal modifier loss that simultaneously addresses head-tail imbalance and positive-negative imbalance to adaptively modify the attention to different samples (Modification) under the LT class distribution. In addition, we develop a balanced training strategy by distilling the model's learning effect from head and tail samples, and thus design a balanced classifier (Balance) conditioned on the head and tail learning effect to maintain stable performance for all samples. Our experimental study shows that the proposed significantly outperforms general MLC, LT-MLC and PL-MLC methods in terms of effectiveness and robustness on our newly created PLT-MLC datasets.

Phantom of Latent for Large Language and Vision Models

The success of visual instruction tuning has accelerated the development of large language and vision models (LLVMs). Following the scaling laws of instruction-tuned large language models (LLMs), LLVMs either have further increased their sizes, reaching 26B, 34B, and even 80B parameters. While this increase in model size has yielded significant performance gains, it demands substantially more hardware resources for both training and inference. Consequently, there naturally exists a strong need for efficient LLVMs that achieve the performance of larger models while being smaller in size. To achieve this need, we present a new efficient LLVM family with model sizes of 0.5B, 1.8B, 3.8B, and 7B parameters, Phantom, which significantly enhances learning capabilities within limited structures. By temporarily increasing the latent hidden dimension during multi-head self-attention (MHSA), we make LLVMs prepare to look and understand much more vision-language knowledge on the latent, without substantially increasing physical model sizes. To maximize its advantage, we introduce Phantom Optimization (PO) using both autoregressive supervised fine-tuning (SFT) and direct preference optimization (DPO)-like concept, which effectively follows correct answers while eliminating incorrect and ambiguous ones. Phantom outperforms numerous larger open- and closed-source LLVMs, positioning itself as a leading solution in the landscape of efficient LLVMs.