Mini-Gemini: Mining the Potential of Multi-modality Vision Language Models

In this work, we introduce Mini-Gemini, a simple and effective framework enhancing multi-modality Vision Language Models (VLMs). Despite the advancements in VLMs facilitating basic visual dialog and reasoning, a performance gap persists compared to advanced models like GPT-4 and Gemini. We try to narrow the gap by mining the potential of VLMs for better performance and any-to-any workflow from three aspects, i.e., high-resolution visual tokens, high-quality data, and VLM-guided generation. To enhance visual tokens, we propose to utilize an additional visual encoder for high-resolution refinement without increasing the visual token count. We further construct a high-quality dataset that promotes precise image comprehension and reasoning-based generation, expanding the operational scope of current VLMs. In general, Mini-Gemini further mines the potential of VLMs and empowers current frameworks with image understanding, reasoning, and generation simultaneously. Mini-Gemini supports a series of dense and MoE Large Language Models (LLMs) from 2B to 34B. It is demonstrated to achieve leading performance in several zero-shot benchmarks and even surpasses the developed private models. Code and models are available at https://github.com/dvlab-research/MiniGemini.

Move as You Say, Interact as You Can: Language-guided Human Motion Generation with Scene Affordance

Despite significant advancements in text-to-motion synthesis, generating language-guided human motion within 3D environments poses substantial challenges. These challenges stem primarily from (i) the absence of powerful generative models capable of jointly modeling natural language, 3D scenes, and human motion, and (ii) the generative models' intensive data requirements contrasted with the scarcity of comprehensive, high-quality, language-scene-motion datasets. To tackle these issues, we introduce a novel two-stage framework that employs scene affordance as an intermediate representation, effectively linking 3D scene grounding and conditional motion generation. Our framework comprises an Affordance Diffusion Model (ADM) for predicting explicit affordance map and an Affordance-to-Motion Diffusion Model (AMDM) for generating plausible human motions. By leveraging scene affordance maps, our method overcomes the difficulty in generating human motion under multimodal condition signals, especially when training with limited data lacking extensive language-scene-motion pairs. Our extensive experiments demonstrate that our approach consistently outperforms all baselines on established benchmarks, including HumanML3D and HUMANISE. Additionally, we validate our model's exceptional generalization capabilities on a specially curated evaluation set featuring previously unseen descriptions and scenes.

Scaling Up Dynamic Human-Scene Interaction Modeling

Confronting the challenges of data scarcity and advanced motion synthesis in human-scene interaction modeling, we introduce the TRUMANS dataset alongside a novel HSI motion synthesis method. TRUMANS stands as the most comprehensive motion-captured HSI dataset currently available, encompassing over 15 hours of human interactions across 100 indoor scenes. It intricately captures whole-body human motions and part-level object dynamics, focusing on the realism of contact. This dataset is further scaled up by transforming physical environments into exact virtual models and applying extensive augmentations to appearance and motion for both humans and objects while maintaining interaction fidelity. Utilizing TRUMANS, we devise a diffusion-based autoregressive model that efficiently generates HSI sequences of any length, taking into account both scene context and intended actions. In experiments, our approach shows remarkable zero-shot generalizability on a range of 3D scene datasets (e.g., PROX, Replica, ScanNet, ScanNet++), producing motions that closely mimic original motion-captured sequences, as confirmed by quantitative experiments and human studies.

Highly Accurate Disease Diagnosis and Highly Reproducible Biomarker Identification with PathFormer

Biomarker identification is critical for precise disease diagnosis and understanding disease pathogenesis in omics data analysis, like using fold change and regression analysis. Graph neural networks (GNNs) have been the dominant deep learning model for analyzing graph-structured data. However, we found two major limitations of existing GNNs in omics data analysis, i.e., limited-prediction (diagnosis) accuracy and limited-reproducible biomarker identification capacity across multiple datasets. The root of the challenges is the unique graph structure of biological signaling pathways, which consists of a large number of targets and intensive and complex signaling interactions among these targets. To resolve these two challenges, in this study, we presented a novel GNN model architecture, named PathFormer, which systematically integrate signaling network, priori knowledge and omics data to rank biomarkers and predict disease diagnosis. In the comparison results, PathFormer outperformed existing GNN models significantly in terms of highly accurate prediction capability ( 30% accuracy improvement in disease diagnosis compared with existing GNN models) and high reproducibility of biomarker ranking across different datasets. The improvement was confirmed using two independent Alzheimer's Disease (AD) and cancer transcriptomic datasets. The PathFormer model can be directly applied to other omics data analysis studies.

Large-Language-Model Empowered Dose Volume Histogram Prediction for Intensity Modulated Radiotherapy

Treatment planning is currently a patient specific, time-consuming, and resource demanding task in radiotherapy. Dose-volume histogram (DVH) prediction plays a critical role in automating this process. The geometric relationship between DVHs in radiotherapy plans and organs-at-risk (OAR) and planning target volume (PTV) has been well established. This study explores the potential of deep learning models for predicting DVHs using images and subsequent human intervention facilitated by a large-language model (LLM) to enhance the planning quality. We propose a pipeline to convert unstructured images to a structured graph consisting of image-patch nodes and dose nodes. A novel Dose Graph Neural Network (DoseGNN) model is developed for predicting DVHs from the structured graph. The proposed DoseGNN is enhanced with the LLM to encode massive knowledge from prescriptions and interactive instructions from clinicians. In this study, we introduced an online human-AI collaboration (OHAC) system as a practical implementation of the concept proposed for the automation of intensity-modulated radiotherapy (IMRT) planning. In comparison to the widely-employed DL models used in radiotherapy, DoseGNN achieved mean square errors that were 80$\%$, 76$\%$ and 41.0$\%$ of those predicted by Swin U-Net Transformer, 3D U-Net CNN and vanilla MLP, respectively. Moreover, the LLM-empowered DoseGNN model facilitates seamless adjustment to treatment plans through interaction with clinicians using natural language.

Large Language Model Meets Graph Neural Network in Knowledge Distillation

Despite recent community revelations about the advancements and potential applications of Large Language Models (LLMs) in understanding Text-Attributed Graph (TAG), the deployment of LLMs for production is hindered by its high computational and storage requirements, as well as long latencies during model inference. Simultaneously, although traditional Graph Neural Networks (GNNs) are light weight and adept at learning structural features of graphs, their ability to grasp the complex semantics in TAG is somewhat constrained for real applications. To address these limitations, we concentrate on the downstream task of node classification in TAG and propose a novel graph knowledge distillation framework, termed Linguistic Graph Knowledge Distillation (LinguGKD), using LLMs as teacher models and GNNs as student models for knowledge distillation. It involves TAG-oriented instruction tuning of LLM on designed tailored prompts, followed by propagating knowledge and aligning the hierarchically learned node features from the teacher LLM to the student GNN in latent space, employing a layer-adaptive contrastive learning strategy. Through extensive experiments on a variety of LLM and GNN models and multiple benchmark datasets, the proposed LinguGKD significantly boosts the student GNN's predictive accuracy and convergence rate, without the need of extra data or model parameters. Compared to teacher LLM, distilled GNN achieves superior inference speed equipped with much fewer computing and storage demands, when surpassing the teacher LLM's classification accuracy on some of benchmark datasets.

DoseGNN: Improving the Performance of Deep Learning Models in Adaptive Dose-Volume Histogram Prediction through Graph Neural Networks

Dose-Volume Histogram (DVH) prediction is fundamental in radiation therapy that facilitate treatment planning, dose evaluation, plan comparison and etc. It helps to increase the ability to deliver precise and effective radiation treatments while managing potential toxicities to healthy tissues as needed to reduce the risk of complications. This paper extends recently disclosed research findings presented on AAPM (AAPM 65th Annual Meeting $\&$ Exhibition) and includes necessary technique details. The objective is to design efficient deep learning models for DVH prediction on general radiotherapy platform equipped with high performance CBCT system, where input CT images and target dose images to predict may have different origins, spacing and sizes. Deep learning models widely-adopted in DVH prediction task are evaluated on the novel radiotherapy platform, and graph neural networks (GNNs) are shown to be the ideal architecture to construct a plug-and-play framework to improve predictive performance of base deep learning models in the adaptive setting.

TFDMNet: A Novel Network Structure Combines the Time Domain and Frequency Domain Features

Convolutional neural network (CNN) has achieved impressive success in computer vision during the past few decades. The image convolution operation helps CNNs to get good performance on image-related tasks. However, it also has high computation complexity and hard to be parallelized. This paper proposes a novel Element-wise Multiplication Layer (EML) to replace convolution layers, which can be trained in the frequency domain. Theoretical analyses show that EMLs lower the computation complexity and easier to be parallelized. Moreover, we introduce a Weight Fixation mechanism to alleviate the problem of over-fitting, and analyze the working behavior of Batch Normalization and Dropout in the frequency domain. To get the balance between the computation complexity and memory usage, we propose a new network structure, namely Time-Frequency Domain Mixture Network (TFDMNet), which combines the advantages of both convolution layers and EMLs. Experimental results imply that TFDMNet achieves good performance on MNIST, CIFAR-10 and ImageNet databases with less number of operations comparing with corresponding CNNs.

A Systematic Literature Review on Explainability for Machine/Deep Learning-based Software Engineering Research

The remarkable achievements of Artificial Intelligence (AI) algorithms, particularly in Machine Learning (ML) and Deep Learning (DL), have fueled their extensive deployment across multiple sectors, including Software Engineering (SE). However, due to their black-box nature, these promising AI-driven SE models are still far from being deployed in practice. This lack of explainability poses unwanted risks for their applications in critical tasks, such as vulnerability detection, where decision-making transparency is of paramount importance. This paper endeavors to elucidate this interdisciplinary domain by presenting a systematic literature review of approaches that aim to improve the explainability of AI models within the context of SE. The review canvasses work appearing in the most prominent SE & AI conferences and journals, and spans 63 papers across 21 unique SE tasks. Based on three key Research Questions (RQs), we aim to (1) summarize the SE tasks where XAI techniques have shown success to date; (2) classify and analyze different XAI techniques; and (3) investigate existing evaluation approaches. Based on our findings, we identified a set of challenges remaining to be addressed in existing studies, together with a roadmap highlighting potential opportunities we deemed appropriate and important for future work.