Xinyang Liu

Dongsheng Wang, Miaoge Li, Xinyang Liu et al.

Advancements in prompt tuning of vision-language models have underscored their potential in enhancing open-world visual concept comprehension. However, prior works only primarily focus on single-mode (only one prompt for each modality) and holistic level (image or sentence) semantic alignment, which fails to capture the sample diversity, leading to sub-optimal prompt discovery. To address the limitation, we propose a multi-mode token-level tuning framework that leverages the optimal transportation to learn and align a set of prompt tokens across modalities. Specifically, we rely on two essential factors: 1) multi-mode prompts discovery, which guarantees diverse semantic representations, and 2) token-level alignment, which helps explore fine-grained similarity. Consequently, the similarity can be calculated as a hierarchical transportation problem between the modality-specific sets. Extensive experiments on popular image recognition benchmarks show the superior generalization and few-shot abilities of our approach. The qualitative analysis demonstrates that the learned prompt tokens have the ability to capture diverse visual concepts.

Miaoge Li, Dongsheng Wang, Xinyang Liu et al.

Multi-label image classification is a prediction task that aims to identify more than one label from a given image. This paper considers the semantic consistency of the latent space between the visual patch and linguistic label domains and introduces the conditional transport (CT) theory to bridge the acknowledged gap. While recent cross-modal attention-based studies have attempted to align such two representations and achieved impressive performance, they required carefully-designed alignment modules and extra complex operations in the attention computation. We find that by formulating the multi-label classification as a CT problem, we can exploit the interactions between the image and label efficiently by minimizing the bidirectional CT cost. Specifically, after feeding the images and textual labels into the modality-specific encoders, we view each image as a mixture of patch embeddings and a mixture of label embeddings, which capture the local region features and the class prototypes, respectively. CT is then employed to learn and align those two semantic sets by defining the forward and backward navigators. Importantly, the defined navigators in CT distance model the similarities between patches and labels, which provides an interpretable tool to visualize the learned prototypes. Extensive experiments on three public image benchmarks show that the proposed model consistently outperforms the previous methods.

Xinyang Liu, Dongsheng Wang, Bowei Fang et al.

For downstream applications of vision-language pre-trained models, there has been significant interest in constructing effective prompts. Existing works on prompt engineering, which either require laborious manual designs or optimize the prompt tuning as a point estimation problem, may fail to describe diverse characteristics of categories and limit their applications. We introduce a Bayesian probabilistic resolution to prompt tuning, where the label-specific stochastic prompts are generated hierarchically by first sampling a latent vector from an underlying distribution and then employing a lightweight generative model. Importantly, we semantically regularize the tuning process by minimizing the statistical distance between the visual patches and linguistic prompts, which pushes the stochastic label representations to faithfully capture diverse visual concepts, instead of overfitting the training categories. We evaluate the effectiveness of our approach on four tasks: few-shot image recognition, base-to-new generalization, dataset transfer learning, and domain shifts. Extensive results over 15 datasets show promising transferability and generalization performance of our proposed model, both quantitatively and qualitatively.

Zhifan Jiang, Daniel Capellán-Martín, Abhijeet Parida et al.

Accurate and automatic segmentation of brain tumors in multi-parametric magnetic resonance imaging (mpMRI) is essential for quantitative measurements, which play an increasingly important role in clinical diagnosis and prognosis. The International Brain Tumor Segmentation (BraTS) Challenge 2024 offers a unique benchmarking opportunity, including various types of brain tumors in both adult and pediatric populations, such as pediatric brain tumors (PED), meningiomas (MEN-RT) and brain metastases (MET), among others. Compared to previous editions, BraTS 2024 has implemented changes to substantially increase clinical relevance, such as refined tumor regions for evaluation. We propose a deep learning-based ensemble approach that integrates state-of-the-art segmentation models. Additionally, we introduce innovative, adaptive pre- and post-processing techniques that employ MRI-based radiomic analyses to differentiate tumor subtypes. Given the heterogeneous nature of the tumors present in the BraTS datasets, this approach enhances the precision and generalizability of segmentation models. On the final testing sets, our method achieved mean lesion-wise Dice similarity coefficients of 0.926, 0.801, and 0.688 for the whole tumor in PED, MEN-RT, and MET, respectively. These results demonstrate the effectiveness of our approach in improving segmentation performance and generalizability for various brain tumor types. The source code of our implementation is available at https://github.com/Precision-Medical-Imaging-Group/HOPE-Segmenter-Kids. Additionally, an open-source web-application is accessible at https://segmenter.hope4kids.io/ which uses the docker container aparida12/brats-peds-2024:v20240913 .

Xinyue Hu, Zhibin Duan, Xinyang Liu et al.

Recently, generative graph models have shown promising results in learning graph representations through self-supervised methods. However, most existing generative graph representation learning (GRL) approaches rely on random masking across the entire graph, which overlooks the entanglement of learned representations. This oversight results in non-robustness and a lack of explainability. Furthermore, disentangling the learned representations remains a significant challenge and has not been sufficiently explored in GRL research. Based on these insights, this paper introduces DiGGR (Disentangled Generative Graph Representation Learning), a self-supervised learning framework. DiGGR aims to learn latent disentangled factors and utilizes them to guide graph mask modeling, thereby enhancing the disentanglement of learned representations and enabling end-to-end joint learning. Extensive experiments on 11 public datasets for two different graph learning tasks demonstrate that DiGGR consistently outperforms many previous self-supervised methods, verifying the effectiveness of the proposed approach.

Bo Li, Duyuan Zheng, Xinyang Liu et al.

Person re-identification (ReID) in surveillance is challenged by occlusion, viewpoint distortion, and poor image quality. Most existing methods rely on complex modules or perform well only on clear frontal images. We propose Sh-ViT (Shuffling Vision Transformer), a lightweight and robust model for occluded person ReID. Built on ViT-Base, Sh-ViT introduces three components: First, a Shuffle module in the final Transformer layer to break spatial correlations and enhance robustness to occlusion and blur; Second, scenario-adapted augmentation (geometric transforms, erasing, blur, and color adjustment) to simulate surveillance conditions; Third, DeiT-based knowledge distillation to improve learning with limited labels.To support real-world evaluation, we construct the MyTT dataset, containing over 10,000 pedestrians and 30,000+ images from base station inspections, with frequent equipment occlusion and camera variations. Experiments show that Sh-ViT achieves 83.2% Rank-1 and 80.1% mAP on MyTT, outperforming CNN and ViT baselines, and 94.6% Rank-1 and 87.5% mAP on Market1501, surpassing state-of-the-art methods.In summary, Sh-ViT improves robustness to occlusion and blur without external modules, offering a practical solution for surveillance-based personnel monitoring.

Dominic LaBella, Ujjwal Baid, Omaditya Khanna et al.

We describe the design and results from the BraTS 2023 Intracranial Meningioma Segmentation Challenge. The BraTS Meningioma Challenge differed from prior BraTS Glioma challenges in that it focused on meningiomas, which are typically benign extra-axial tumors with diverse radiologic and anatomical presentation and a propensity for multiplicity. Nine participating teams each developed deep-learning automated segmentation models using image data from the largest multi-institutional systematically expert annotated multilabel multi-sequence meningioma MRI dataset to date, which included 1000 training set cases, 141 validation set cases, and 283 hidden test set cases. Each case included T2, FLAIR, T1, and T1Gd brain MRI sequences with associated tumor compartment labels delineating enhancing tumor, non-enhancing tumor, and surrounding non-enhancing FLAIR hyperintensity. Participant automated segmentation models were evaluated and ranked based on a scoring system evaluating lesion-wise metrics including dice similarity coefficient (DSC) and 95% Hausdorff Distance. The top ranked team had a lesion-wise median dice similarity coefficient (DSC) of 0.976, 0.976, and 0.964 for enhancing tumor, tumor core, and whole tumor, respectively and a corresponding average DSC of 0.899, 0.904, and 0.871, respectively. These results serve as state-of-the-art benchmarks for future pre-operative meningioma automated segmentation algorithms. Additionally, we found that 1286 of 1424 cases (90.3%) had at least 1 compartment voxel abutting the edge of the skull-stripped image edge, which requires further investigation into optimal pre-processing face anonymization steps.

Anahita Fathi Kazerooni, Nastaran Khalili, Xinyang Liu et al.

Pediatric tumors of the central nervous system are the most common cause of cancer-related death in children. The five-year survival rate for high-grade gliomas in children is less than 20%. Due to their rarity, the diagnosis of these entities is often delayed, their treatment is mainly based on historic treatment concepts, and clinical trials require multi-institutional collaborations. Here we present the CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs challenge, focused on pediatric brain tumors with data acquired across multiple international consortia dedicated to pediatric neuro-oncology and clinical trials. The CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs challenge brings together clinicians and AI/imaging scientists to lead to faster development of automated segmentation techniques that could benefit clinical trials, and ultimately the care of children with brain tumors.

Abhijeet Parida, Daniel Capellán-Martín, Zhifan Jiang et al.

Gliomas, a kind of brain tumor characterized by high mortality, present substantial diagnostic challenges in low- and middle-income countries, particularly in Sub-Saharan Africa. This paper introduces a novel approach to glioma segmentation using transfer learning to address challenges in resource-limited regions with minimal and low-quality MRI data. We leverage pre-trained deep learning models, nnU-Net and MedNeXt, and apply a stratified fine-tuning strategy using the BraTS2023-Adult-Glioma and BraTS-Africa datasets. Our method exploits radiomic analysis to create stratified training folds, model training on a large brain tumor dataset, and transfer learning to the Sub-Saharan context. A weighted model ensembling strategy and adaptive post-processing are employed to enhance segmentation accuracy. The evaluation of our proposed method on unseen validation cases on the BraTS-Africa 2024 task resulted in lesion-wise mean Dice scores of 0.870, 0.865, and 0.926, for enhancing tumor, tumor core, and whole tumor regions and was ranked first for the challenge. Our approach highlights the ability of integrated machine-learning techniques to bridge the gap between the medical imaging capabilities of resource-limited countries and established developed regions. By tailoring our methods to a target population's specific needs and constraints, we aim to enhance diagnostic capabilities in isolated environments. Our findings underscore the importance of approaches like local data integration and stratification refinement to address healthcare disparities, ensure practical applicability, and enhance impact. A dockerized version of the BraTS-Africa 2024 winning algorithm is available at https://hub.docker.com/r/aparida12/brats-ssa-2024 .

Chaojie Wang, Xinyang Liu, Dongsheng Wang et al.

Although existing variational graph autoencoders (VGAEs) have been widely used for modeling and generating graph-structured data, most of them are still not flexible enough to approximate the sparse and skewed latent node representations, especially those of document relational networks (DRNs) with discrete observations. To analyze a collection of interconnected documents, a typical branch of Bayesian models, specifically relational topic models (RTMs), has proven their efficacy in describing both link structures and document contents of DRNs, which motives us to incorporate RTMs with existing VGAEs to alleviate their potential issues when modeling the generation of DRNs. In this paper, moving beyond the sophisticated approximate assumptions of traditional RTMs, we develop a graph Poisson factor analysis (GPFA), which provides analytic conditional posteriors to improve the inference accuracy, and extend GPFA to a multi-stochastic-layer version named graph Poisson gamma belief network (GPGBN) to capture the hierarchical document relationships at multiple semantic levels. Then, taking GPGBN as the decoder, we combine it with various Weibull-based graph inference networks, resulting in two variants of Weibull graph auto-encoder (WGAE), equipped with model inference algorithms. Experimental results demonstrate that our models can extract high-quality hierarchical latent document representations and achieve promising performance on various graph analytic tasks.

Maruf Adewole, Jeffrey D. Rudie, Anu Gbadamosi et al.

Gliomas are the most common type of primary brain tumors. Although gliomas are relatively rare, they are among the deadliest types of cancer, with a survival rate of less than 2 years after diagnosis. Gliomas are challenging to diagnose, hard to treat and inherently resistant to conventional therapy. Years of extensive research to improve diagnosis and treatment of gliomas have decreased mortality rates across the Global North, while chances of survival among individuals in low- and middle-income countries (LMICs) remain unchanged and are significantly worse in Sub-Saharan Africa (SSA) populations. Long-term survival with glioma is associated with the identification of appropriate pathological features on brain MRI and confirmation by histopathology. Since 2012, the Brain Tumor Segmentation (BraTS) Challenge have evaluated state-of-the-art machine learning methods to detect, characterize, and classify gliomas. However, it is unclear if the state-of-the-art methods can be widely implemented in SSA given the extensive use of lower-quality MRI technology, which produces poor image contrast and resolution and more importantly, the propensity for late presentation of disease at advanced stages as well as the unique characteristics of gliomas in SSA (i.e., suspected higher rates of gliomatosis cerebri). Thus, the BraTS-Africa Challenge provides a unique opportunity to include brain MRI glioma cases from SSA in global efforts through the BraTS Challenge to develop and evaluate computer-aided-diagnostic (CAD) methods for the detection and characterization of glioma in resource-limited settings, where the potential for CAD tools to transform healthcare are more likely.

Anahita Fathi Kazerooni, Nastaran Khalili, Xinyang Liu et al.

Pediatric tumors of the central nervous system are the most common cause of cancer-related death in children. The five-year survival rate for high-grade gliomas in children is less than 20\%. Due to their rarity, the diagnosis of these entities is often delayed, their treatment is mainly based on historic treatment concepts, and clinical trials require multi-institutional collaborations. The MICCAI Brain Tumor Segmentation (BraTS) Challenge is a landmark community benchmark event with a successful history of 12 years of resource creation for the segmentation and analysis of adult glioma. Here we present the CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs 2023 challenge, which represents the first BraTS challenge focused on pediatric brain tumors with data acquired across multiple international consortia dedicated to pediatric neuro-oncology and clinical trials. The BraTS-PEDs 2023 challenge focuses on benchmarking the development of volumentric segmentation algorithms for pediatric brain glioma through standardized quantitative performance evaluation metrics utilized across the BraTS 2023 cluster of challenges. Models gaining knowledge from the BraTS-PEDs multi-parametric structural MRI (mpMRI) training data will be evaluated on separate validation and unseen test mpMRI dataof high-grade pediatric glioma. The CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs 2023 challenge brings together clinicians and AI/imaging scientists to lead to faster development of automated segmentation techniques that could benefit clinical trials, and ultimately the care of children with brain tumors.

Hongwei Bran Li, Gian Marco Conte, Qingqiao Hu et al.

Automated brain tumor segmentation methods have become well-established and reached performance levels offering clear clinical utility. These methods typically rely on four input magnetic resonance imaging (MRI) modalities: T1-weighted images with and without contrast enhancement, T2-weighted images, and FLAIR images. However, some sequences are often missing in clinical practice due to time constraints or image artifacts, such as patient motion. Consequently, the ability to substitute missing modalities and gain segmentation performance is highly desirable and necessary for the broader adoption of these algorithms in the clinical routine. In this work, we present the establishment of the Brain MR Image Synthesis Benchmark (BraSyn) in conjunction with the Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2023. The primary objective of this challenge is to evaluate image synthesis methods that can realistically generate missing MRI modalities when multiple available images are provided. The ultimate aim is to facilitate automated brain tumor segmentation pipelines. The image dataset used in the benchmark is diverse and multi-modal, created through collaboration with various hospitals and research institutions.

Florian Kofler, Felix Meissen, Felix Steinbauer et al.

A myriad of algorithms for the automatic analysis of brain MR images is available to support clinicians in their decision-making. For brain tumor patients, the image acquisition time series typically starts with an already pathological scan. This poses problems, as many algorithms are designed to analyze healthy brains and provide no guarantee for images featuring lesions. Examples include, but are not limited to, algorithms for brain anatomy parcellation, tissue segmentation, and brain extraction. To solve this dilemma, we introduce the BraTS inpainting challenge. Here, the participants explore inpainting techniques to synthesize healthy brain scans from lesioned ones. The following manuscript contains the task formulation, dataset, and submission procedure. Later, it will be updated to summarize the findings of the challenge. The challenge is organized as part of the ASNR-BraTS MICCAI challenge.

Dominic LaBella, Maruf Adewole, Michelle Alonso-Basanta et al.

Meningiomas are the most common primary intracranial tumor in adults and can be associated with significant morbidity and mortality. Radiologists, neurosurgeons, neuro-oncologists, and radiation oncologists rely on multiparametric MRI (mpMRI) for diagnosis, treatment planning, and longitudinal treatment monitoring; yet automated, objective, and quantitative tools for non-invasive assessment of meningiomas on mpMRI are lacking. The BraTS meningioma 2023 challenge will provide a community standard and benchmark for state-of-the-art automated intracranial meningioma segmentation models based on the largest expert annotated multilabel meningioma mpMRI dataset to date. Challenge competitors will develop automated segmentation models to predict three distinct meningioma sub-regions on MRI including enhancing tumor, non-enhancing tumor core, and surrounding nonenhancing T2/FLAIR hyperintensity. Models will be evaluated on separate validation and held-out test datasets using standardized metrics utilized across the BraTS 2023 series of challenges including the Dice similarity coefficient and Hausdorff distance. The models developed during the course of this challenge will aid in incorporation of automated meningioma MRI segmentation into clinical practice, which will ultimately improve care of patients with meningioma.

Martin Wagner, Beat-Peter Müller-Stich, Anna Kisilenko et al.

PURPOSE: Surgical workflow and skill analysis are key technologies for the next generation of cognitive surgical assistance systems. These systems could increase the safety of the operation through context-sensitive warnings and semi-autonomous robotic assistance or improve training of surgeons via data-driven feedback. In surgical workflow analysis up to 91% average precision has been reported for phase recognition on an open data single-center dataset. In this work we investigated the generalizability of phase recognition algorithms in a multi-center setting including more difficult recognition tasks such as surgical action and surgical skill. METHODS: To achieve this goal, a dataset with 33 laparoscopic cholecystectomy videos from three surgical centers with a total operation time of 22 hours was created. Labels included annotation of seven surgical phases with 250 phase transitions, 5514 occurences of four surgical actions, 6980 occurences of 21 surgical instruments from seven instrument categories and 495 skill classifications in five skill dimensions. The dataset was used in the 2019 Endoscopic Vision challenge, sub-challenge for surgical workflow and skill analysis. Here, 12 teams submitted their machine learning algorithms for recognition of phase, action, instrument and/or skill assessment. RESULTS: F1-scores were achieved for phase recognition between 23.9% and 67.7% (n=9 teams), for instrument presence detection between 38.5% and 63.8% (n=8 teams), but for action recognition only between 21.8% and 23.3% (n=5 teams). The average absolute error for skill assessment was 0.78 (n=1 team). CONCLUSION: Surgical workflow and skill analysis are promising technologies to support the surgical team, but are not solved yet, as shown by our comparison of algorithms. This novel benchmark can be used for comparable evaluation and validation of future work.

Xin Chen, Qi Zhao, Xinyang Liu

With the fast development of Deep Learning techniques, Named Entity Recognition (NER) is becoming more and more important in the information extraction task. The greatest difficulty that the NER task faces is to keep the detectability even when types of NE and documents are unfamiliar. Realizing that the specificity information may contain potential meanings of a word and generate semantic-related features for word embedding, we develop a distribution-aware word embedding and implement three different methods to make use of the distribution information in a NER framework. And the result shows that the performance of NER will be improved if the word specificity is incorporated into existing NER methods.

Xiaopeng Bi, Yu Chen, Xinyang Liu et al.

This report describes Megvii-3D team's approach towards CVPR 2021 Image Matching Workshop.