3D-TransUNet for Brain Metastases Segmentation in the BraTS2023 Challenge

Segmenting brain tumors is complex due to their diverse appearances and scales. Brain metastases, the most common type of brain tumor, are a frequent complication of cancer. Therefore, an effective segmentation model for brain metastases must adeptly capture local intricacies to delineate small tumor regions while also integrating global context to understand broader scan features. The TransUNet model, which combines Transformer self-attention with U-Net's localized information, emerges as a promising solution for this task. In this report, we address brain metastases segmentation by training the 3D-TransUNet model on the Brain Tumor Segmentation (BraTS-METS) 2023 challenge dataset. Specifically, we explored two architectural configurations: the Encoder-only 3D-TransUNet, employing Transformers solely in the encoder, and the Decoder-only 3D-TransUNet, utilizing Transformers exclusively in the decoder. For Encoder-only 3D-TransUNet, we note that Masked-Autoencoder pre-training is required for a better initialization of the Transformer Encoder and thus accelerates the training process. We identify that the Decoder-only 3D-TransUNet model should offer enhanced efficacy in the segmentation of brain metastases, as indicated by our 5-fold cross-validation on the training set. However, our use of the Encoder-only 3D-TransUNet model already yield notable results, with an average lesion-wise Dice score of 59.8\% on the test set, securing second place in the BraTS-METS 2023 challenge.

SPFormer: Enhancing Vision Transformer with Superpixel Representation

In this work, we introduce SPFormer, a novel Vision Transformer enhanced by superpixel representation. Addressing the limitations of traditional Vision Transformers' fixed-size, non-adaptive patch partitioning, SPFormer employs superpixels that adapt to the image's content. This approach divides the image into irregular, semantically coherent regions, effectively capturing intricate details and applicable at both initial and intermediate feature levels. SPFormer, trainable end-to-end, exhibits superior performance across various benchmarks. Notably, it exhibits significant improvements on the challenging ImageNet benchmark, achieving a 1.4% increase over DeiT-T and 1.1% over DeiT-S respectively. A standout feature of SPFormer is its inherent explainability. The superpixel structure offers a window into the model's internal processes, providing valuable insights that enhance the model's interpretability. This level of clarity significantly improves SPFormer's robustness, particularly in challenging scenarios such as image rotations and occlusions, demonstrating its adaptability and resilience.

A Semantic Space is Worth 256 Language Descriptions: Make Stronger Segmentation Models with Descriptive Properties

This paper introduces ProLab, a novel approach using property-level label space for creating strong interpretable segmentation models. Instead of relying solely on category-specific annotations, ProLab uses descriptive properties grounded in common sense knowledge for supervising segmentation models. It is based on two core designs. First, we employ Large Language Models (LLMs) and carefully crafted prompts to generate descriptions of all involved categories that carry meaningful common sense knowledge and follow a structured format. Second, we introduce a description embedding model preserving semantic correlation across descriptions and then cluster them into a set of descriptive properties (e.g., 256) using K-Means. These properties are based on interpretable common sense knowledge consistent with theories of human recognition. We empirically show that our approach makes segmentation models perform stronger on five classic benchmarks (e.g., ADE20K, COCO-Stuff, Pascal Context, Cityscapes, and BDD). Our method also shows better scalability with extended training steps than category-level supervision. Our interpretable segmentation framework also emerges with the generalization ability to segment out-of-domain or unknown categories using only in-domain descriptive properties. Code is available at https://github.com/lambert-x/ProLab.

Tuning LayerNorm in Attention: Towards Efficient Multi-Modal LLM Finetuning

This paper introduces an efficient strategy to transform Large Language Models (LLMs) into Multi-Modal Large Language Models (MLLMs). By conceptualizing this transformation as a domain adaptation process, i.e., transitioning from text understanding to embracing multiple modalities, we intriguingly note that, within each attention block, tuning LayerNorm suffices to yield strong performance. Moreover, when benchmarked against other tuning approaches like full parameter finetuning or LoRA, its benefits on efficiency are substantial. For example, when compared to LoRA on a 13B model scale, performance can be enhanced by an average of over 20% across five multi-modal tasks, and meanwhile, results in a significant reduction of trainable parameters by 41.9% and a decrease in GPU memory usage by 17.6%. On top of this LayerNorm strategy, we showcase that selectively tuning only with conversational data can improve efficiency further. Beyond these empirical outcomes, we provide a comprehensive analysis to explore the role of LayerNorm in adapting LLMs to the multi-modal domain and improving the expressive power of the model.

SCLIP: Rethinking Self-Attention for Dense Vision-Language Inference

Recent advances in contrastive language-image pretraining (CLIP) have demonstrated strong capabilities in zero-shot classification by aligning visual representations with target text embeddings in an image level. However, in dense prediction tasks, CLIP often struggles to localize visual features within an image and fails to give accurate pixel-level predictions, which prevents it from functioning as a generalized visual foundation model. In this work, we aim to enhance CLIP's potential for semantic segmentation with minimal modifications to its pretrained models. By rethinking self-attention, we surprisingly find that CLIP can adapt to dense prediction tasks by simply introducing a novel Correlative Self-Attention (CSA) mechanism. Specifically, we replace the traditional self-attention block of CLIP vision encoder's last layer by our CSA module and reuse its pretrained projection matrices of query, key, and value, leading to a training-free adaptation approach for CLIP's zero-shot semantic segmentation. Extensive experiments show the advantage of CSA: we obtain a 38.2% average zero-shot mIoU across eight semantic segmentation benchmarks highlighted in this paper, significantly outperforming the existing SoTA's 33.9% and the vanilla CLIP's 14.1%.

3D TransUNet: Advancing Medical Image Segmentation through Vision Transformers

Medical image segmentation plays a crucial role in advancing healthcare systems for disease diagnosis and treatment planning. The u-shaped architecture, popularly known as U-Net, has proven highly successful for various medical image segmentation tasks. However, U-Net's convolution-based operations inherently limit its ability to model long-range dependencies effectively. To address these limitations, researchers have turned to Transformers, renowned for their global self-attention mechanisms, as alternative architectures. One popular network is our previous TransUNet, which leverages Transformers' self-attention to complement U-Net's localized information with the global context. In this paper, we extend the 2D TransUNet architecture to a 3D network by building upon the state-of-the-art nnU-Net architecture, and fully exploring Transformers' potential in both the encoder and decoder design. We introduce two key components: 1) A Transformer encoder that tokenizes image patches from a convolution neural network (CNN) feature map, enabling the extraction of global contexts, and 2) A Transformer decoder that adaptively refines candidate regions by utilizing cross-attention between candidate proposals and U-Net features. Our investigations reveal that different medical tasks benefit from distinct architectural designs. The Transformer encoder excels in multi-organ segmentation, where the relationship among organs is crucial. On the other hand, the Transformer decoder proves more beneficial for dealing with small and challenging segmented targets such as tumor segmentation. Extensive experiments showcase the significant potential of integrating a Transformer-based encoder and decoder into the u-shaped medical image segmentation architecture. TransUNet outperforms competitors in various medical applications.

FedConv: Enhancing Convolutional Neural Networks for Handling Data Heterogeneity in Federated Learning

Federated learning (FL) is an emerging paradigm in machine learning, where a shared model is collaboratively learned using data from multiple devices to mitigate the risk of data leakage. While recent studies posit that Vision Transformer (ViT) outperforms Convolutional Neural Networks (CNNs) in addressing data heterogeneity in FL, the specific architectural components that underpin this advantage have yet to be elucidated. In this paper, we systematically investigate the impact of different architectural elements, such as activation functions and normalization layers, on the performance within heterogeneous FL. Through rigorous empirical analyses, we are able to offer the first-of-its-kind general guidance on micro-architecture design principles for heterogeneous FL. Intriguingly, our findings indicate that with strategic architectural modifications, pure CNNs can achieve a level of robustness that either matches or even exceeds that of ViTs when handling heterogeneous data clients in FL. Additionally, our approach is compatible with existing FL techniques and delivers state-of-the-art solutions across a broad spectrum of FL benchmarks. The code is publicly available at https://github.com/UCSC-VLAA/FedConv

Superpixel Transformers for Efficient Semantic Segmentation

Semantic segmentation, which aims to classify every pixel in an image, is a key task in machine perception, with many applications across robotics and autonomous driving. Due to the high dimensionality of this task, most existing approaches use local operations, such as convolutions, to generate per-pixel features. However, these methods are typically unable to effectively leverage global context information due to the high computational costs of operating on a dense image. In this work, we propose a solution to this issue by leveraging the idea of superpixels, an over-segmentation of the image, and applying them with a modern transformer framework. In particular, our model learns to decompose the pixel space into a spatially low dimensional superpixel space via a series of local cross-attentions. We then apply multi-head self-attention to the superpixels to enrich the superpixel features with global context and then directly produce a class prediction for each superpixel. Finally, we directly project the superpixel class predictions back into the pixel space using the associations between the superpixels and the image pixel features. Reasoning in the superpixel space allows our method to be substantially more computationally efficient compared to convolution-based decoder methods. Yet, our method achieves state-of-the-art performance in semantic segmentation due to the rich superpixel features generated by the global self-attention mechanism. Our experiments on Cityscapes and ADE20K demonstrate that our method matches the state of the art in terms of accuracy, while outperforming in terms of model parameters and latency.

3D-Aware Neural Body Fitting for Occlusion Robust 3D Human Pose Estimation

Regression-based methods for 3D human pose estimation directly predict the 3D pose parameters from a 2D image using deep networks. While achieving state-of-the-art performance on standard benchmarks, their performance degrades under occlusion. In contrast, optimization-based methods fit a parametric body model to 2D features in an iterative manner. The localized reconstruction loss can potentially make them robust to occlusion, but they suffer from the 2D-3D ambiguity. Motivated by the recent success of generative models in rigid object pose estimation, we propose 3D-aware Neural Body Fitting (3DNBF) - an approximate analysis-by-synthesis approach to 3D human pose estimation with SOTA performance and occlusion robustness. In particular, we propose a generative model of deep features based on a volumetric human representation with Gaussian ellipsoidal kernels emitting 3D pose-dependent feature vectors. The neural features are trained with contrastive learning to become 3D-aware and hence to overcome the 2D-3D ambiguity. Experiments show that 3DNBF outperforms other approaches on both occluded and standard benchmarks. Code is available at https://github.com/edz-o/3DNBF

SwinMM: Masked Multi-view with Swin Transformers for 3D Medical Image Segmentation

Recent advancements in large-scale Vision Transformers have made significant strides in improving pre-trained models for medical image segmentation. However, these methods face a notable challenge in acquiring a substantial amount of pre-training data, particularly within the medical field. To address this limitation, we present Masked Multi-view with Swin Transformers (SwinMM), a novel multi-view pipeline for enabling accurate and data-efficient self-supervised medical image analysis. Our strategy harnesses the potential of multi-view information by incorporating two principal components. In the pre-training phase, we deploy a masked multi-view encoder devised to concurrently train masked multi-view observations through a range of diverse proxy tasks. These tasks span image reconstruction, rotation, contrastive learning, and a novel task that employs a mutual learning paradigm. This new task capitalizes on the consistency between predictions from various perspectives, enabling the extraction of hidden multi-view information from 3D medical data. In the fine-tuning stage, a cross-view decoder is developed to aggregate the multi-view information through a cross-attention block. Compared with the previous state-of-the-art self-supervised learning method Swin UNETR, SwinMM demonstrates a notable advantage on several medical image segmentation tasks. It allows for a smooth integration of multi-view information, significantly boosting both the accuracy and data-efficiency of the model. Code and models are available at https://github.com/UCSC-VLAA/SwinMM/.