OpenRaiser/Intern-Atlas huggingface dataset:
Neural Image Unfolding: Flattening Sparse Anatomical Structures using Neural Fields
Venue: arXiv cs.CV 2024
Year: 2024

Tomographic imaging reveals internal structures of 3D objects and is crucial for medical diagnoses. Visualizing the morphology and appearance of non-planar sparse anatomical structures that extend over multiple 2D slices in tomographic volumes is inherently difficult but valuable for decision-making and reporting. Hence, various organ-specific unfolding techniques exist to map their densely sampled 3D surfaces to a distortion-minimized 2D representation. However, there is no versatile framework to flatten complex sparse structures including vascular, duct or bone systems. We deploy a neural field to fit the transformation of the anatomy of interest to a 2D overview image. We further propose distortion regularization strategies and combine geometric with intensity-based loss formulations to also display non-annotated and auxiliary targets. In addition to improved versatility, our unfolding technique outperforms mesh-based baselines for sparse structures w.r.t. peak distortion and our regularization scheme yields smoother transformations compared to Jacobian formulations from neural field-based image registration.
A Multi-Agent Dual Dialogue System to Support Mental Health Care Providers
Venue: arXiv cs.HC 2024
Year: 2024

We introduce a general-purpose, human-in-the-loop dual dialogue system to support mental health care professionals. The system, co-designed with care providers, is conceptualized to assist them in interacting with care seekers rather than functioning as a fully automated dialogue system solution. The AI assistant within the system reduces the cognitive load of mental health care providers by proposing responses, analyzing conversations to extract pertinent themes, summarizing dialogues, and recommending localized relevant content and internet-based cognitive behavioral therapy exercises. These functionalities are achieved through a multi-agent system design, where each specialized, supportive agent is characterized by a large language model. In evaluating the multi-agent system, we focused specifically on the proposal of responses to emotionally distressed care seekers. We found that the proposed responses matched a reasonable human quality in demonstrating empathy, showing its appropriateness for augmenting the work of mental health care providers.
Advancements in Myocardial Infarction Detection and Classification Using Wearable Devices: A Comprehensive Review
Venue: arXiv cs.LG 2024
Year: 2024

Myocardial infarction (MI), commonly known as a heart attack, is a critical health condition caused by restricted blood flow to the heart. Early-stage detection through continuous ECG monitoring is essential to minimize irreversible damage. This review explores advancements in MI classification methodologies for wearable devices, emphasizing their potential in real-time monitoring and early diagnosis. It critically examines traditional approaches, such as morphological filtering and wavelet decomposition, alongside cutting-edge techniques, including Convolutional Neural Networks (CNNs) and VLSI-based methods. By synthesizing findings on machine learning, deep learning, and hardware innovations, this paper highlights their strengths, limitations, and future prospects. The integration of these techniques into wearable devices offers promising avenues for efficient, accurate, and energy-aware MI detection, paving the way for next-generation wearable healthcare solutions.
What do physics-informed DeepONets learn? Understanding and improving training for scientific computing applications
Venue: arXiv cs.LG 2024
Year: 2024

Physics-informed deep operator networks (DeepONets) have emerged as a promising approach toward numerically approximating the solution of partial differential equations (PDEs). In this work, we aim to develop further understanding of what is being learned by physics-informed DeepONets by assessing the universality of the extracted basis functions and demonstrating their potential toward model reduction with spectral methods. Results provide clarity about measuring the performance of a physics-informed DeepONet through the decays of singular values and expansion coefficients. In addition, we propose a transfer learning approach for improving training for physics-informed DeepONets between parameters of the same PDE as well as across different, but related, PDEs where these models struggle to train well. This approach results in significant error reduction and learned basis functions that are more effective in representing the solution of a PDE.
Automated Literature Review Using NLP Techniques and LLM-Based Retrieval-Augmented Generation
Venue: arXiv cs.CL 2024
Year: 2024

This research presents and compares multiple approaches to automate the generation of literature reviews using several Natural Language Processing (NLP) techniques and retrieval-augmented generation (RAG) with a Large Language Model (LLM). The ever-increasing number of research articles provides a huge challenge for manual literature review. It has resulted in an increased demand for automation. Developing a system capable of automatically generating the literature reviews from only the PDF files as input is the primary objective of this research work. The effectiveness of several Natural Language Processing (NLP) strategies, such as the frequency-based method (spaCy), the transformer model (Simple T5), and retrieval-augmented generation (RAG) with Large Language Model (GPT-3.5-turbo), is evaluated to meet the primary objective. The SciTLDR dataset is chosen for this research experiment and three distinct techniques are utilized to implement three different systems for auto-generating the literature reviews. The ROUGE scores are used for the evaluation of all three systems. Based on the evaluation, the Large Language Model GPT-3.5-turbo achieved the highest ROUGE-1 score, 0.364. The transformer model comes in second place and spaCy is at the last position. Finally, a graphical user interface is created for the best system based on the large language model.
Lift3D Foundation Policy: Lifting 2D Large-Scale Pretrained Models for Robust 3D Robotic Manipulation
Venue: arXiv cs.CV 2024
Year: 2024

3D geometric information is essential for manipulation tasks, as robots need to perceive the 3D environment, reason about spatial relationships, and interact with intricate spatial configurations. Recent research has increasingly focused on the explicit extraction of 3D features, while still facing challenges such as the lack of large-scale robotic 3D data and the potential loss of spatial geometry. To address these limitations, we propose the Lift3D framework, which progressively enhances 2D foundation models with implicit and explicit 3D robotic representations to construct a robust 3D manipulation policy. Specifically, we first design a task-aware masked autoencoder that masks task-relevant affordance patches and reconstructs depth information, enhancing the 2D foundation model's implicit 3D robotic representation. After self-supervised fine-tuning, we introduce a 2D model-lifting strategy that establishes a positional mapping between the input 3D points and the positional embeddings of the 2D model. Based on the mapping, Lift3D utilizes the 2D foundation model to directly encode point cloud data, leveraging large-scale pretrained knowledge to construct explicit 3D robotic representations while minimizing spatial information loss. In experiments, Lift3D consistently outperforms previous state-of-the-art methods across several simulation benchmarks and real-world scenarios.
Cohort profile: the Northwest China Real-world and Population-based Cohort
Venue: arXiv cs.CY 2024
Year: 2024

The Northwest China Real-World and Population-based cohort is an ongoing prospective cohort with more than 25 million population, covering almost all residents across approximately 1.66 million square kilometers in northwest China; The cohort integrates data from various sources, including health profiles, examination records, electronic health records, mortality records, statistical yearbooks, and environmental datasets, covering comprehensive health-related factors such as demographics, lifestyle factors, family medical history, living conditions, enrollment in national public health services, physical examinations, blood assay tests, diagnostic assessments, disease outcomes, and cause-specific mortality. This real-world dataset can evaluate clinical treatment effectiveness and prognosis, assess impact of health policy, and investigate the health effects of multiple risk factors . From January 2019 to December 2023, the cohort has included 13,634,481 participants, accumulating 47,050,707 person-years of follow-up, with 13,598,407 medical diagnosis records and 881,114 recorded deaths. Cohort data are available upon request. De-identified and anonymized data are stored on local servers and accessed through a data-sharing platform, enabling users to utilize the data without direct access to the raw information. A description of the proposed research can be sent to Yining Yang & Qian Di.
Volume Rendering of Human Hand Anatomy
Venue: arXiv cs.GR 2024
Year: 2024

We study the design of transfer functions for volumetric rendering of magnetic resonance imaging (MRI) datasets of human hands. Human hands are anatomically complex, containing various organs within a limited space, which presents challenges for volumetric rendering. We focus on hand musculoskeletal organs because they are volumetrically the largest inside the hand, and most important for the hand's main function, namely manipulation of objects. While volumetric rendering is a mature field, the choice of the transfer function for the different organs is arguably just as important as the choice of the specific volume rendering algorithm; we demonstrate that it significantly influences the clarity and interpretability of the resulting images. We assume that the hand MRI scans have already been segmented into the different organs (bones, muscles, tendons, ligaments, subcutaneous fat, etc.). Our method uses the hand MRI volume data, and the geometry of its inner organs and their known segmentation, to produce high-quality volume rendering images of the hand, and permits fine control over the appearance of each tissue. We contribute two families of transfer functions to emphasize different hand tissues of interest, while preserving the visual context of the hand. We also discuss and reduce artifacts present in standard volume ray-casting of human hands. We evaluate our volumetric rendering on five challenging hand motion sequences. Our experimental results demonstrate that our method improves hand anatomy visualization, compared to standard surface and volume rendering techniques.
AToM: Aligning Text-to-Motion Model at Event-Level with GPT-4Vision Reward
Venue: arXiv cs.CV 2024
Year: 2024

Recently, text-to-motion models have opened new possibilities for creating realistic human motion with greater efficiency and flexibility. However, aligning motion generation with event-level textual descriptions presents unique challenges due to the complex relationship between textual prompts and desired motion outcomes. To address this, we introduce AToM, a framework that enhances the alignment between generated motion and text prompts by leveraging reward from GPT-4Vision. AToM comprises three main stages: Firstly, we construct a dataset MotionPrefer that pairs three types of event-level textual prompts with generated motions, which cover the integrity, temporal relationship and frequency of motion. Secondly, we design a paradigm that utilizes GPT-4Vision for detailed motion annotation, including visual data formatting, task-specific instructions and scoring rules for each sub-task. Finally, we fine-tune an existing text-to-motion model using reinforcement learning guided by this paradigm. Experimental results demonstrate that AToM significantly improves the event-level alignment quality of text-to-motion generation.
Extraction Theorems With Small Extraction Numbers
Venue: arXiv cs.CG 2024
Year: 2024

In this work, we develop Extraction Theorems for classes of geometric objects with small extraction numbers. These classes include intervals, axis-parallel segments, axis-parallel rays, and octants. We investigate these classes of objects and prove small bounds on the extraction numbers. The tightness of these bounds is demonstrated by examples with matching lower bounds.
ScaleViz: Scaling Visualization Recommendation Models on Large Data
Venue: arXiv cs.AI 2024
Year: 2024

Automated visualization recommendations (vis-rec) help users to derive crucial insights from new datasets. Typically, such automated vis-rec models first calculate a large number of statistics from the datasets and then use machine-learning models to score or classify multiple visualizations choices to recommend the most effective ones, as per the statistics. However, state-of-the art models rely on very large number of expensive statistics and therefore using such models on large datasets become infeasible due to prohibitively large computational time, limiting the effectiveness of such techniques to most real world complex and large datasets. In this paper, we propose a novel reinforcement-learning (RL) based framework that takes a given vis-rec model and a time-budget from the user and identifies the best set of input statistics that would be most effective while generating the visual insights within a given time budget, using the given model. Using two state-of-the-art vis-rec models applied on three large real-world datasets, we show the effectiveness of our technique in significantly reducing time-to visualize with very small amount of introduced error. Our approach is about 10X times faster compared to the baseline approaches that introduce similar amounts of error.
OOD-HOI: Text-Driven 3D Whole-Body Human-Object Interactions Generation Beyond Training Domains
Venue: arXiv cs.CV 2024
Year: 2024

Generating realistic 3D human-object interactions (HOIs) from text descriptions is a active research topic with potential applications in virtual and augmented reality, robotics, and animation. However, creating high-quality 3D HOIs remains challenging due to the lack of large-scale interaction data and the difficulty of ensuring physical plausibility, especially in out-of-domain (OOD) scenarios. Current methods tend to focus either on the body or the hands, which limits their ability to produce cohesive and realistic interactions. In this paper, we propose OOD-HOI, a text-driven framework for generating whole-body human-object interactions that generalize well to new objects and actions. Our approach integrates a dual-branch reciprocal diffusion model to synthesize initial interaction poses, a contact-guided interaction refiner to improve physical accuracy based on predicted contact areas, and a dynamic adaptation mechanism which includes semantic adjustment and geometry deformation to improve robustness. Experimental results demonstrate that our OOD-HOI could generate more realistic and physically plausible 3D interaction pose in OOD scenarios compared to existing methods.
SimCMF: A Simple Cross-modal Fine-tuning Strategy from Vision Foundation Models to Any Imaging Modality
Venue: arXiv cs.CV 2024
Year: 2024

Foundation models like ChatGPT and Sora that are trained on a huge scale of data have made a revolutionary social impact. However, it is extremely challenging for sensors in many different fields to collect similar scales of natural images to train strong foundation models. To this end, this work presents a simple and effective framework, SimCMF, to study an important problem: cross-modal fine-tuning from vision foundation models trained on natural RGB images to other imaging modalities of different physical properties (e.g., polarization). In SimCMF, we conduct a thorough analysis of different basic components from the most naive design and ultimately propose a novel cross-modal alignment module to address the modality misalignment problem. We apply SimCMF to a representative vision foundation model Segment Anything Model (SAM) to support any evaluated new imaging modality. Given the absence of relevant benchmarks, we construct a benchmark for performance evaluation. Our experiments confirm the intriguing potential of transferring vision foundation models in enhancing other sensors' performance. SimCMF can improve the segmentation performance (mIoU) from 22.15% to 53.88% on average for evaluated modalities and consistently outperforms other baselines. The code is available at https://github.com/mt-cly/SimCMF
Graph-Based Biomarker Discovery and Interpretation for Alzheimer's Disease
Venue: arXiv cs.LG 2024
Year: 2024

Early diagnosis and discovery of therapeutic drug targets are crucial objectives for the effective management of Alzheimer's Disease (AD). Current approaches for AD diagnosis and treatment planning are based on radiological imaging and largely inaccessible for population-level screening due to prohibitive costs and limited availability. Recently, blood tests have shown promise in diagnosing AD and highlighting possible biomarkers that can be used as drug targets for AD management. Blood tests are significantly more accessible to disadvantaged populations, cost-effective, and minimally invasive. However, biomarker discovery in the context of AD diagnosis is complex as there exist important associations between various biomarkers. Here, we introduce BRAIN (Biomarker Representation, Analysis, and Interpretation Network), a novel machine learning (ML) framework to jointly optimize the diagnostic accuracy and biomarker discovery processes to identify all relevant biomarkers that contribute to AD diagnosis. Using a holistic graph-based representation for biomarkers, we highlight their inter-dependencies and explain why different ML models identify different discriminative biomarkers. We apply BRAIN to a publicly available blood biomarker dataset, revealing three novel biomarker sub-networks whose interactions vary between the control and AD groups, offering a new paradigm for drug discovery and biomarker analysis for AD.
CrossTracker: Robust Multi-modal 3D Multi-Object Tracking via Cross Correction
Venue: arXiv cs.CV 2024
Year: 2024

The fusion of camera- and LiDAR-based detections offers a promising solution to mitigate tracking failures in 3D multi-object tracking (MOT). However, existing methods predominantly exploit camera detections to correct tracking failures caused by potential LiDAR detection problems, neglecting the reciprocal benefit of refining camera detections using LiDAR data. This limitation is rooted in their single-stage architecture, akin to single-stage object detectors, lacking a dedicated trajectory refinement module to fully exploit the complementary multi-modal information. To this end, we introduce CrossTracker, a novel two-stage paradigm for online multi-modal 3D MOT. CrossTracker operates in a coarse-to-fine manner, initially generating coarse trajectories and subsequently refining them through an independent refinement process. Specifically, CrossTracker incorporates three essential modules: i) a multi-modal modeling (M^3) module that, by fusing multi-modal information (images, point clouds, and even plane geometry extracted from images), provides a robust metric for subsequent trajectory generation. ii) a coarse trajectory generation (C-TG) module that generates initial coarse dual-stream trajectories, and iii) a trajectory refinement (TR) module that refines coarse trajectories through cross correction between camera and LiDAR streams. Comprehensive experiments demonstrate the superior performance of our CrossTracker over its eighteen competitors, underscoring its effectiveness in harnessing the synergistic benefits of camera and LiDAR sensors for robust multi-modal 3D MOT.
Efficient Track Anything
Venue: arXiv cs.CV 2024
Year: 2024

Segment Anything Model 2 (SAM 2) has emerged as a powerful tool for video object segmentation and tracking anything. Key components of SAM 2 that drive the impressive video object segmentation performance include a large multistage image encoder for frame feature extraction and a memory mechanism that stores memory contexts from past frames to help current frame segmentation. The high computation complexity of multistage image encoder and memory module has limited its applications in real-world tasks, e.g., video object segmentation on mobile devices. To address this limitation, we propose EfficientTAMs, lightweight track anything models that produce high-quality results with low latency and model size. Our idea is based on revisiting the plain, nonhierarchical Vision Transformer (ViT) as an image encoder for video object segmentation, and introducing an efficient memory module, which reduces the complexity for both frame feature extraction and memory computation for current frame segmentation. We take vanilla lightweight ViTs and efficient memory module to build EfficientTAMs, and train the models on SA-1B and SA-V datasets for video object segmentation and track anything tasks. We evaluate on multiple video segmentation benchmarks including semi-supervised VOS and promptable video segmentation, and find that our proposed EfficientTAM with vanilla ViT perform comparably to SAM 2 model (HieraB+SAM 2) with ~2x speedup on A100 and ~2.4x parameter reduction. On segment anything image tasks, our EfficientTAMs also perform favorably over original SAM with ~20x speedup on A100 and ~20x parameter reduction. On mobile devices such as iPhone 15 Pro Max, our EfficientTAMs can run at ~10 FPS for performing video object segmentation with reasonable quality, highlighting the capability of small models for on-device video object segmentation applications.
SuperGaussians: Enhancing Gaussian Splatting Using Primitives with Spatially Varying Colors
Venue: arXiv cs.CV 2024
Year: 2024

Gaussian Splattings demonstrate impressive results in multi-view reconstruction based on Gaussian explicit representations. However, the current Gaussian primitives only have a single view-dependent color and an opacity to represent the appearance and geometry of the scene, resulting in a non-compact representation. In this paper, we introduce a new method called SuperGaussians that utilizes spatially varying colors and opacity in a single Gaussian primitive to improve its representation ability. We have implemented bilinear interpolation, movable kernels, and even tiny neural networks as spatially varying functions. Quantitative and qualitative experimental results demonstrate that all three functions outperform the baseline, with the best movable kernels achieving superior novel view synthesis performance on multiple datasets, highlighting the strong potential of spatially varying functions.