Most polyp segmentation methods use convolutional neural networks (CNNs) as their backbone, leading to two key issues when exchanging information between the encoder and decoder: (1) taking into account the differences in contribution between different-level features, and (2) designing an effective mechanism for fusing these features. Unlike existing CNN-based methods, we adopt a transformer encoder, which learns more powerful and robust representations. In addition, considering the image acquisition influence and elusive properties of polyps, we introduce three standard modules, including a cascaded fusion module (CFM), a camouflage identification module (CIM), and a similarity aggregation module (SAM). Among these, the CFM is used to collect the semantic and location information of polyps from high-level features; the CIM is applied to capture polyp information disguised in low-level features, and the SAM extends the pixel features of the polyp area with high-level semantic position information to the entire polyp area, thereby effectively fusing cross-level features. The proposed model, named Polyp-PVT, effectively suppresses noises in the features and significantly improves their expressive capabilities. Extensive experiments on five widely adopted datasets show that the proposed model is more robust to various challenging situations (e.g., appearance changes, small objects, and rotation) than existing representative methods. The proposed model is available at <a ext-link-type="uri" href="https://github.com/DengPingFan/Polyp-PVT">https://github.com/DengPingFan/Polyp-PVT</a>. 

/pdf/polyp-pvt-polyp-segmentation-with-pyramid-vision-1llo6vap.pdf

Polyp-PVT: Polyp Segmentation with Pyramid Vision Transformers

Most polyp segmentation methods use CNNs as their backbone, leading to two key issues when exchanging information between the encoder and decoder: 1) taking into account the differences in contribution between different-level features; and 2) designing effective mechanism for fusing these features. Different from existing CNN-based methods, we adopt a transformer encoder, which learns more powerful and robust representations. In addition, considering the image acquisition influence and elusive properties of polyps, we introduce three novel modules, including a cascaded fusion module (CFM), a camouflage identification module (CIM), a and similarity aggregation module (SAM). Among these, the CFM is used to collect the semantic and location information of polyps from high-level features, while the CIM is applied to capture polyp information disguised in low-level features. With the help of the SAM, we extend the pixel features of the polyp area with high-level semantic position information to the entire polyp area, thereby effectively fusing cross-level features. The proposed model, named \ourmodel, effectively suppresses noises in the features and significantly improves their expressive capabilities. Extensive experiments on five widely adopted datasets show that the proposed model is more robust to various challenging situations (e.g., appearance changes, small objects) than existing methods, and achieves the new state-of-the-art performance. The proposed model is available at this https URL .

/pdf/polyp-pvt-polyp-segmentation-with-pyramid-vision-3v6gfk29qe.pdf

Polyp-PVT: Polyp Segmentation with Pyramid Vision Transformers.

The utilization of large language models (LLMs) in the Healthcare domain has generated both excitement and concern due to their ability to effectively respond to freetext queries with certain professional knowledge. This survey outlines the capabilities of the currently developed LLMs for Healthcare and explicates their development process, with the aim of providing an overview of the development roadmap from traditional Pretrained Language Models (PLMs) to LLMs. Specifically, we first explore the potential of LLMs to enhance the efficiency and effectiveness of various Healthcare applications highlighting both the strengths and limitations. Secondly, we conduct a comparison between the previous PLMs and the latest LLMs, as well as comparing various LLMs with each other. Then we summarize related Healthcare training data, training methods, optimization strategies, and usage. Finally, the unique concerns associated with deploying LLMs in Healthcare settings are investigated, particularly regarding fairness, accountability, transparency and ethics. Our survey provide a comprehensive investigation from perspectives of both computer science and Healthcare specialty. Besides the discussion about Healthcare concerns, we supports the computer science community by compiling a collection of open source resources, such as accessible datasets, the latest methodologies, code implementations, and evaluation benchmarks in the Github. Summarily, we contend that a significant paradigm shift is underway, transitioning from PLMs to LLMs. This shift encompasses a move from discriminative AI approaches to generative AI approaches, as well as a shift from model-centered methodologies to datacentered methodologies.

pdf/a-survey-of-large-language-models-for-healthcare-from-data-29refwsfbx.pdf

A Survey of Large Language Models for Healthcare: from Data, Technology, and Applications to Accountability and Ethics

We propose a new task to benchmark scene understanding of embodied agents: Situated Question Answering in 3D Scenes (SQA3D). Given a scene context (e.g., 3D scan), SQA3D requires the tested agent to first understand its situation (position, orientation, etc.) in the 3D scene as described by text, then reason about its surrounding environment and answer a question under that situation. Based upon 650 scenes from ScanNet, we provide a dataset centered around 6.8k unique situations, along with 20.4k descriptions and 33.4k diverse reasoning questions for these situations. These questions examine a wide spectrum of reasoning capabilities for an intelligent agent, ranging from spatial relation comprehension to commonsense understanding, navigation, and multi-hop reasoning. SQA3D imposes a significant challenge to current multi-modal especially 3D reasoning models. We evaluate various state-of-the-art approaches and find that the best one only achieves an overall score of 47.20%, while amateur human participants can reach 90.06%. We believe SQA3D could facilitate future embodied AI research with stronger situation understanding and reasoning capability.

pdf/sqa3d-situated-question-answering-in-3d-scenes-29hvgfhs.pdf

SQA3D: Situated Question Answering in 3D Scenes

Pre-trained language models (PLMs) have been the de facto paradigm for most natural language processing tasks. This also benefits the biomedical domain: researchers from informatics, medicine, and computer science communities propose various PLMs trained on biomedical datasets, e.g., biomedical text, electronic health records, protein, and DNA sequences for various biomedical tasks. However, the cross-discipline characteristics of biomedical PLMs hinder their spreading among communities; some existing works are isolated from each other without comprehensive comparison and discussions. It is nontrivial to make a survey that not only systematically reviews recent advances in biomedical PLMs and their applications but also standardizes terminology and benchmarks. This article summarizes the recent progress of pre-trained language models in the biomedical domain and their applications in downstream biomedical tasks. Particularly, we discuss the motivations of PLMs in the biomedical domain and introduce the key concepts of pre-trained language models. We then propose a taxonomy of existing biomedical PLMs that categorizes them from various perspectives systematically. Plus, their applications in biomedical downstream tasks are exhaustively discussed, respectively. Last, we illustrate various limitations and future trends, which aims to provide inspiration for the future research. 

Pre-trained Language Models in Biomedical Domain: A Systematic Survey

Automatic and accurate polyp segmentation plays an essential role in early colorectal cancer diagnosis. However, it has always been a challenging task due to 1) the diverse shape, size, brightness and other appearance characteristics of polyps, 2) the tiny contrast between concealed polyps and their surrounding regions. To address these problems, we propose a lesion-aware dynamic network (LDNet) for polyp segmentation, which is a traditional u-shape encoder-decoder structure incorporated with a dynamic kernel generation and updating scheme. Specifically, the designed segmentation head is conditioned on the global context features of the input image and iteratively updated by the extracted lesion features according to polyp segmentation predictions. This simple but effective scheme endows our model with powerful segmentation performance and generalization capability. Besides, we utilize the extracted lesion representation to enhance the feature contrast between the polyp and background regions by a tailored lesion-aware cross-attention module (LCA), and design an efficient self-attention module (ESA) to capture long-range context relations, further improving the segmentation accuracy. Extensive experiments on four public polyp benchmarks and our collected large-scale polyp dataset demonstrate the superior performance of our method compared with other state-of-the-art approaches. The source code is available at https://github.com/ReaFly/LDNet . 

/pdf/lesion-aware-dynamic-kernel-for-polyp-segmentation-1jkmi2y0.pdf

Lesion-Aware Dynamic Kernel for Polyp Segmentation

Biomedical text mining is becoming increasingly important as the number of biomedical documents and web data rapidly grows. Recently, word representation models such as BERT has gained popularity among researchers. However, it is difficult to estimate their performance on datasets containing biomedical texts as the word distributions of general and biomedical corpora are quite different. Moreover, the medical domain has long-tail concepts and terminologies that are difficult to be learned via language models. For the Chinese biomedical text, it is more difficult due to its complex structure and the variety of phrase combinations. In this paper, we investigate how the recently introduced pre-trained language model BERT can be adapted for Chinese biomedical corpora and propose a novel conceptualized representation learning approach. We also release a new Chinese Biomedical Language Understanding Evaluation benchmark (\textbf{ChineseBLUE}). We examine the effectiveness of Chinese pre-trained models: BERT, BERT-wwm, RoBERTa, and our approach. Experimental results on the benchmark show that our approach could bring significant gain. We release the pre-trained model on GitHub: this https URL.

Conceptualized Representation Learning for Chinese Biomedical Text Mining.

Outside-knowledge visual question answering (OK-VQA) requires the agent to comprehend the image, make use of relevant knowledge from the entire web, and digest all the information to answer the question. Most previous works address the problem by first fusing the image and question in the multi-modal space, which is inflexible for further fusion with a vast amount of external knowledge. In this paper, we call for an alternative paradigm for the OK-VQA task, which transforms the image into plain text, so that we can enable knowledge passage retrieval, and generative question-answering in the natural language space. This paradigm takes advantage of the sheer volume of gigantic knowledge bases and the richness of pretrained language models. A Transform-Retrieve-Generate framework (TRiG) framework is proposed11The code of this work will be made public., which can be plug-and-played with alternative image-to-text models and textual knowledge bases. Experimental results show that our TRiG framework outperforms all state-of-the-art supervised methods by at least 11.1 % absolute margin.

Transform-Retrieve-Generate: Natural Language-Centric Outside-Knowledge Visual Question Answering

Outside-knowledge visual question answering (OK-VQA) requires the agent to comprehend the image, make use of relevant knowledge from the entire web, and digest all the information to answer the question. Most previous works address the problem by first fusing the image and question in the multi-modal space, which is inflexible for further fusion with a vast amount of external knowledge. In this paper, we call for a paradigm shift for the OK-VQA task, which transforms the image into plain text, so that we can enable knowledge passage retrieval, and generative question-answering in the natural language space. This paradigm takes advantage of the sheer volume of gigantic knowledge bases and the richness of pre-trained language models. A Transform-Retrieve-Generate framework (TRiG) framework is proposed, which can be plug-and-played with alternative image-to-text models and textual knowledge bases. Experimental results show that our TRiG framework outperforms all state-of-the-art supervised methods by at least 11.1% absolute margin.

A Thousand Words Are Worth More Than a Picture: Natural Language-Centric Outside-Knowledge Visual Question Answering

A key goal for the advancement of AI is to develop technologies that serve the needs not just of one group but of all communities regardless of their geographical region. In fact, a significant proportion of knowledge is locally shared by people from certain regions but may not apply equally in other regions because of cultural differences. If a model is unaware of regional characteristics, it may lead to performance disparity across regions and result in bias against underrepresented groups. We propose GIVL, a Geographically Inclusive Vision-and-Language Pre-trained model. There are two attributes of geo-diverse visual concepts which can help to learn geo-diverse knowledge: 1) concepts under similar categories have unique knowledge and visual characteristics, 2) concepts with similar visual features may fall in completely different categories. Motivated by the attributes, we design new pre-training objectives Image Knowledge Matching (IKM) and Image Edit Checking (IEC) to pre-train GIVL. Compared with similar-size models pre-trained with similar scale of data, GIVL achieves state-of-the-art (SOTA) and more balanced performance on geo-diverse V&L tasks.

GIVL: Improving Geographical Inclusivity of Vision-Language Models with Pre-Training Methods

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