Zhou, Yuchen
Advancing Multimodal Medical Capabilities of Gemini
Yang, Lin, Xu, Shawn, Sellergren, Andrew, Kohlberger, Timo, Zhou, Yuchen, Ktena, Ira, Kiraly, Atilla, Ahmed, Faruk, Hormozdiari, Farhad, Jaroensri, Tiam, Wang, Eric, Wulczyn, Ellery, Jamil, Fayaz, Guidroz, Theo, Lau, Chuck, Qiao, Siyuan, Liu, Yun, Goel, Akshay, Park, Kendall, Agharwal, Arnav, George, Nick, Wang, Yang, Tanno, Ryutaro, Barrett, David G. T., Weng, Wei-Hung, Mahdavi, S. Sara, Saab, Khaled, Tu, Tao, Kalidindi, Sreenivasa Raju, Etemadi, Mozziyar, Cuadros, Jorge, Sorensen, Gregory, Matias, Yossi, Chou, Katherine, Corrado, Greg, Barral, Joelle, Shetty, Shravya, Fleet, David, Eslami, S. M. Ali, Tse, Daniel, Prabhakara, Shruthi, McLean, Cory, Steiner, Dave, Pilgrim, Rory, Kelly, Christopher, Azizi, Shekoofeh, Golden, Daniel
Many clinical tasks require an understanding of specialized data, such as medical images and genomics, which is not typically found in general-purpose large multimodal models. Building upon Gemini's multimodal models, we develop several models within the new Med-Gemini family that inherit core capabilities of Gemini and are optimized for medical use via fine-tuning with 2D and 3D radiology, histopathology, ophthalmology, dermatology and genomic data. Med-Gemini-2D sets a new standard for AI-based chest X-ray (CXR) report generation based on expert evaluation, exceeding previous best results across two separate datasets by an absolute margin of 1% and 12%, where 57% and 96% of AI reports on normal cases, and 43% and 65% on abnormal cases, are evaluated as "equivalent or better" than the original radiologists' reports. We demonstrate the first ever large multimodal model-based report generation for 3D computed tomography (CT) volumes using Med-Gemini-3D, with 53% of AI reports considered clinically acceptable, although additional research is needed to meet expert radiologist reporting quality. Beyond report generation, Med-Gemini-2D surpasses the previous best performance in CXR visual question answering (VQA) and performs well in CXR classification and radiology VQA, exceeding SoTA or baselines on 17 of 20 tasks. In histopathology, ophthalmology, and dermatology image classification, Med-Gemini-2D surpasses baselines across 18 out of 20 tasks and approaches task-specific model performance. Beyond imaging, Med-Gemini-Polygenic outperforms the standard linear polygenic risk score-based approach for disease risk prediction and generalizes to genetically correlated diseases for which it has never been trained. Although further development and evaluation are necessary in the safety-critical medical domain, our results highlight the potential of Med-Gemini across a wide range of medical tasks.
CLAP: Learning Transferable Binary Code Representations with Natural Language Supervision
Wang, Hao, Gao, Zeyu, Zhang, Chao, Sha, Zihan, Sun, Mingyang, Zhou, Yuchen, Zhu, Wenyu, Sun, Wenju, Qiu, Han, Xiao, Xi
Binary code representation learning has shown significant performance in binary analysis tasks. But existing solutions often have poor transferability, particularly in few-shot and zero-shot scenarios where few or no training samples are available for the tasks. To address this problem, we present CLAP (Contrastive Language-Assembly Pre-training), which employs natural language supervision to learn better representations of binary code (i.e., assembly code) and get better transferability. At the core, our approach boosts superior transfer learning capabilities by effectively aligning binary code with their semantics explanations (in natural language), resulting a model able to generate better embeddings for binary code. To enable this alignment training, we then propose an efficient dataset engine that could automatically generate a large and diverse dataset comprising of binary code and corresponding natural language explanations. We have generated 195 million pairs of binary code and explanations and trained a prototype of CLAP. The evaluations of CLAP across various downstream tasks in binary analysis all demonstrate exceptional performance. Notably, without any task-specific training, CLAP is often competitive with a fully supervised baseline, showing excellent transferability. We release our pre-trained model and code at https://github.com/Hustcw/CLAP.
Divergences between Language Models and Human Brains
Zhou, Yuchen, Liu, Emmy, Neubig, Graham, Tarr, Michael J., Wehbe, Leila
Do machines and humans process language in similar ways? Recent research has hinted in the affirmative, finding that brain signals can be effectively predicted using the internal representations of language models (LMs). Although such results are thought to reflect shared computational principles between LMs and human brains, there are also clear differences in how LMs and humans represent and use language. In this work, we systematically explore the divergences between human and machine language processing by examining the differences between LM representations and human brain responses to language as measured by Magnetoencephalography (MEG) across two datasets in which subjects read and listened to narrative stories. Using a data-driven approach, we identify two domains that are not captured well by LMs: social/emotional intelligence and physical commonsense. We then validate these domains with human behavioral experiments and show that fine-tuning LMs on these domains can improve their alignment with human brain responses.
How Far Have We Gone in Vulnerability Detection Using Large Language Models
Gao, Zeyu, Wang, Hao, Zhou, Yuchen, Zhu, Wenyu, Zhang, Chao
As software becomes increasingly complex and prone to vulnerabilities, automated vulnerability detection is critically important, yet challenging. Given the significant successes of large language models (LLMs) in various tasks, there is growing anticipation of their efficacy in vulnerability detection. However, a quantitative understanding of their potential in vulnerability detection is still missing. To bridge this gap, we introduce a comprehensive vulnerability benchmark VulBench. This benchmark aggregates high-quality data from a wide range of CTF (Capture-the-Flag) challenges and real-world applications, with annotations for each vulnerable function detailing the vulnerability type and its root cause. Through our experiments encompassing 16 LLMs and 6 state-of-the-art (SOTA) deep learning-based models and static analyzers, we find that several LLMs outperform traditional deep learning approaches in vulnerability detection, revealing an untapped potential in LLMs. This work contributes to the understanding and utilization of LLMs for enhanced software security.
PartSLIP++: Enhancing Low-Shot 3D Part Segmentation via Multi-View Instance Segmentation and Maximum Likelihood Estimation
Zhou, Yuchen, Gu, Jiayuan, Li, Xuanlin, Liu, Minghua, Fang, Yunhao, Su, Hao
Open-world 3D part segmentation is pivotal in diverse applications such as robotics and AR/VR. Traditional supervised methods often grapple with limited 3D data availability and struggle to generalize to unseen object categories. PartSLIP, a recent advancement, has made significant strides in zero- and few-shot 3D part segmentation. This is achieved by harnessing the capabilities of the 2D open-vocabulary detection module, GLIP, and introducing a heuristic method for converting and lifting multi-view 2D bounding box predictions into 3D segmentation masks. In this paper, we introduce PartSLIP++, an enhanced version designed to overcome the limitations of its predecessor. Our approach incorporates two major improvements. First, we utilize a pre-trained 2D segmentation model, SAM, to produce pixel-wise 2D segmentations, yielding more precise and accurate annotations than the 2D bounding boxes used in PartSLIP. Second, PartSLIP++ replaces the heuristic 3D conversion process with an innovative modified Expectation-Maximization algorithm. This algorithm conceptualizes 3D instance segmentation as unobserved latent variables, and then iteratively refines them through an alternating process of 2D-3D matching and optimization with gradient descent. Through extensive evaluations, we show that PartSLIP++ demonstrates better performance over PartSLIP in both low-shot 3D semantic and instance-based object part segmentation tasks. Code released at https://github.com/zyc00/PartSLIP2.
Heteroskedastic Tensor Clustering
Zhou, Yuchen, Chen, Yuxin
Tensor clustering, which seeks to extract underlying cluster structures from noisy tensor observations, has gained increasing attention. One extensively studied model for tensor clustering is the tensor block model, which postulates the existence of clustering structures along each mode and has found broad applications in areas like multi-tissue gene expression analysis and multilayer network analysis. However, currently available computationally feasible methods for tensor clustering either are limited to handling i.i.d. sub-Gaussian noise or suffer from suboptimal statistical performance, which restrains their utility in applications that have to deal with heteroskedastic data and/or low signal-to-noise-ratio (SNR). To overcome these challenges, we propose a two-stage method, named $\mathsf{High\text{-}order~HeteroClustering}$ ($\mathsf{HHC}$), which starts by performing tensor subspace estimation via a novel spectral algorithm called $\mathsf{Thresholded~Deflated\text{-}HeteroPCA}$, followed by approximate $k$-means to obtain cluster nodes. Encouragingly, our algorithm provably achieves exact clustering as long as the SNR exceeds the computational limit (ignoring logarithmic factors); here, the SNR refers to the ratio of the pairwise disparity between nodes to the noise level, and the computational limit indicates the lowest SNR that enables exact clustering with polynomial runtime. Comprehensive simulation and real-data experiments suggest that our algorithm outperforms existing algorithms across various settings, delivering more reliable clustering performance.
Grounding Visual Illusions in Language: Do Vision-Language Models Perceive Illusions Like Humans?
Zhang, Yichi, Pan, Jiayi, Zhou, Yuchen, Pan, Rui, Chai, Joyce
Vision-Language Models (VLMs) are trained on vast amounts of data captured by humans emulating our understanding of the world. However, known as visual illusions, human's perception of reality isn't always faithful to the physical world. This raises a key question: do VLMs have the similar kind of illusions as humans do, or do they faithfully learn to represent reality? To investigate this question, we build a dataset containing five types of visual illusions and formulate four tasks to examine visual illusions in state-of-the-art VLMs. Our findings have shown that although the overall alignment is low, larger models are closer to human perception and more susceptible to visual illusions. Our dataset and initial findings will promote a better understanding of visual illusions in humans and machines and provide a stepping stone for future computational models that can better align humans and machines in perceiving and communicating about the shared visual world. The code and data are available at https://github.com/vl-illusion/dataset.
Efficiently Visualizing Large Graphs
Li, Xinyu, Xiao, Yao, Zhou, Yuchen
Most existing graph visualization methods based on dimension reduction are limited to relatively small graphs due to performance issues. In this work, we propose a novel dimension reduction method for graph visualization, called t-Distributed Stochastic Graph Neighbor Embedding (t-SGNE). t-SGNE is specifically designed to visualize cluster structures in the graph. As a variant of the standard t-SNE method, t-SGNE avoids the time-consuming computations of pairwise similarity. Instead, it uses the neighbor structures of the graph to reduce the time complexity from quadratic to linear, thus supporting larger graphs. In addition, to suit t-SGNE, we combined Laplacian Eigenmaps with the shortest path algorithm in graphs to form the graph embedding algorithm ShortestPath Laplacian Eigenmaps Embedding (SPLEE). Performing SPLEE to obtain a high-dimensional embedding of the large-scale graph and then using t-SGNE to reduce its dimension for visualization, we are able to visualize graphs with up to 300K nodes and 1M edges within 5 minutes and achieve approximately 10% improvement in visualization quality. Codes and data are available at https://github.com/Charlie-XIAO/embedding-visualization-test.
kTrans: Knowledge-Aware Transformer for Binary Code Embedding
Zhu, Wenyu, Wang, Hao, Zhou, Yuchen, Wang, Jiaming, Sha, Zihan, Gao, Zeyu, Zhang, Chao
Binary Code Embedding (BCE) has important applications in various reverse engineering tasks such as binary code similarity detection, type recovery, control-flow recovery and data-flow analysis. Recent studies have shown that the Transformer model can comprehend the semantics of binary code to support downstream tasks. However, existing models overlooked the prior knowledge of assembly language. In this paper, we propose a novel Transformer-based approach, namely kTrans, to generate knowledge-aware binary code embedding. By feeding explicit knowledge as additional inputs to the Transformer, and fusing implicit knowledge with a novel pre-training task, kTrans provides a new perspective to incorporating domain knowledge into a Transformer framework. We inspect the generated embeddings with outlier detection and visualization, and also apply kTrans to 3 downstream tasks: Binary Code Similarity Detection (BCSD), Function Type Recovery (FTR) and Indirect Call Recognition (ICR). Evaluation results show that kTrans can generate high-quality binary code embeddings, and outperforms state-of-the-art (SOTA) approaches on downstream tasks by 5.2%, 6.8%, and 12.6% respectively. kTrans is publicly available at: https://github.com/Learner0x5a/kTrans-release
Quantifying the Roles of Visual, Linguistic, and Visual-Linguistic Complexity in Verb Acquisition
Zhou, Yuchen, Tarr, Michael J., Yurovsky, Daniel
Children typically learn the meanings of nouns earlier than the meanings of verbs. However, it is unclear whether this asymmetry is a result of complexity in the visual structure of categories in the world to which language refers, the structure of language itself, or the interplay between the two sources of information. We quantitatively test these three hypotheses regarding early verb learning by employing visual and linguistic representations of words sourced from large-scale pre-trained artificial neural networks. Examining the structure of both visual and linguistic embedding spaces, we find, first, that the representation of verbs is generally more variable and less discriminable within domain than the representation of nouns. Second, we find that if only one learning instance per category is available, visual and linguistic representations are less well aligned in the verb system than in the noun system. However, in parallel with the course of human language development, if multiple learning instances per category are available, visual and linguistic representations become almost as well aligned in the verb system as in the noun system. Third, we compare the relative contributions of factors that may predict learning difficulty for individual words. A regression analysis reveals that visual variability is the strongest factor that internally drives verb learning, followed by visual-linguistic alignment and linguistic variability. Based on these results, we conclude that verb acquisition is influenced by all three sources of complexity, but that the variability of visual structure poses the most significant challenge for verb learning.