arXiv subjects

Dianbo Liu

Publications and source records attributed to Dianbo Liu.

At least 91 records · Page 5Linked to original sources

arXiv2024

BarlowTwins-CXR : Enhancing Chest X-Ray abnormality localization in heterogeneous data with cross-domain self-supervised learning

Background: Chest X-ray imaging-based abnormality localization, essential in diagnosing various diseases, faces significant clinical challenges due to complex interpretations and the growing workload of radiologists. While recent advances in deep learning offer promising solutions, there is still a critical issue of domain inconsistency in cross-domain transfer learning, which hampers the efficiency and accuracy of diagnostic processes. This study aims to address the domain inconsistency problem and improve autonomic abnormality localization performance of heterogeneous chest X-ray image analysis, by developing a self-supervised learning strategy called "BarlwoTwins-CXR". Methods: We utilized two publicly available datasets: the NIH Chest X-ray Dataset and the VinDr-CXR. The BarlowTwins-CXR approach was conducted in a two-stage training process. Initially, self-supervised pre-training was performed using an adjusted Barlow Twins algorithm on the NIH dataset with a Resnet50 backbone pre-trained on ImageNet. This was followed by supervised fine-tuning on the VinDr-CXR dataset using Faster R-CNN with Feature Pyramid Network (FPN). Results: Our experiments showed a significant improvement in model performance with BarlowTwins-CXR. The approach achieved a 3% increase in mAP50 accuracy compared to traditional ImageNet pre-trained models. In addition, the Ablation CAM method revealed enhanced precision in localizing chest abnormalities. Conclusion: BarlowTwins-CXR significantly enhances the efficiency and accuracy of chest X-ray image-based abnormality localization, outperforming traditional transfer learning methods and effectively overcoming domain inconsistency in cross-domain scenarios. Our experiment results demonstrate the potential of using self-supervised learning to improve the generalizability of models in medical settings with limited amounts of heterogeneous data.

cs.CV↗

arXiv2023

Reusable Slotwise Mechanisms

Agents with the ability to comprehend and reason about the dynamics of objects would be expected to exhibit improved robustness and generalization in novel scenarios. However, achieving this capability necessitates not only an effective scene representation but also an understanding of the mechanisms governing interactions among object subsets. Recent studies have made significant progress in representing scenes using object slots. In this work, we introduce Reusable Slotwise Mechanisms, or RSM, a framework that models object dynamics by leveraging communication among slots along with a modular architecture capable of dynamically selecting reusable mechanisms for predicting the future states of each object slot. Crucially, RSM leverages the Central Contextual Information (CCI), enabling selected mechanisms to access the remaining slots through a bottleneck, effectively allowing for modeling of higher order and complex interactions that might require a sparse subset of objects. Experimental results demonstrate the superior performance of RSM compared to state-of-the-art methods across various future prediction and related downstream tasks, including Visual Question Answering and action planning. Furthermore, we showcase RSM's Out-of-Distribution generalization ability to handle scenes in intricate scenarios.

cs.AI↗

arXiv2023

Stateful active facilitator: Coordination and Environmental Heterogeneity in Cooperative Multi-Agent Reinforcement Learning

In cooperative multi-agent reinforcement learning, a team of agents works together to achieve a common goal. Different environments or tasks may require varying degrees of coordination among agents in order to achieve the goal in an optimal way. The nature of coordination will depend on the properties of the environment -- its spatial layout, distribution of obstacles, dynamics, etc. We term this variation of properties within an environment as heterogeneity. Existing literature has not sufficiently addressed the fact that different environments may have different levels of heterogeneity. We formalize the notions of coordination level and heterogeneity level of an environment and present HECOGrid, a suite of multi-agent RL environments that facilitates empirical evaluation of different MARL approaches across different levels of coordination and environmental heterogeneity by providing a quantitative control over coordination and heterogeneity levels of the environment. Further, we propose a Centralized Training Decentralized Execution learning approach called Stateful Active Facilitator (SAF) that enables agents to work efficiently in high-coordination and high-heterogeneity environments through a differentiable and shared knowledge source used during training and dynamic selection from a shared pool of policies. We evaluate SAF and compare its performance against baselines IPPO and MAPPO on HECOGrid. Our results show that SAF consistently outperforms the baselines across different tasks and different heterogeneity and coordination levels. We release the code for HECOGrid as well as all our experiments.

cs.AI↗

arXiv2023

Causal Inference in Gene Regulatory Networks with GFlowNet: Towards Scalability in Large Systems

Understanding causal relationships within Gene Regulatory Networks (GRNs) is essential for unraveling the gene interactions in cellular processes. However, causal discovery in GRNs is a challenging problem for multiple reasons including the existence of cyclic feedback loops and uncertainty that yields diverse possible causal structures. Previous works in this area either ignore cyclic dynamics (assume acyclic structure) or struggle with scalability. We introduce Swift-DynGFN as a novel framework that enhances causal structure learning in GRNs while addressing scalability concerns. Specifically, Swift-DynGFN exploits gene-wise independence to boost parallelization and to lower computational cost. Experiments on real single-cell RNA velocity and synthetic GRN datasets showcase the advancement in learning causal structure in GRNs and scalability in larger systems.

cs.AI↗

arXiv2023

Probabilistic Generative Modeling for Procedural Roundabout Generation for Developing Countries

Due to limited resources and fast economic growth, designing optimal transportation road networks with traffic simulation and validation in a cost-effective manner is vital for developing countries, where extensive manual testing is expensive and often infeasible. Current rule-based road design generators lack diversity, a key feature for design robustness. Generative Flow Networks (GFlowNets) learn stochastic policies to sample from an unnormalized reward distribution, thus generating high-quality solutions while preserving their diversity. In this work, we formulate the problem of linking incident roads to the circular junction of a roundabout by a Markov decision process, and we leverage GFlowNets as the Junction-Art road generator. We compare our method with related methods and our empirical results show that our method achieves better diversity while preserving a high validity score.

cs.AI↗

arXiv2023

Attention Schema in Neural Agents

Attention has become a common ingredient in deep learning architectures. It adds a dynamical selection of information on top of the static selection of information supported by weights. In the same way, we can imagine a higher-order informational filter built on top of attention: an Attention Schema (AS), namely, a descriptive and predictive model of attention. In cognitive neuroscience, Attention Schema Theory (AST) supports this idea of distinguishing attention from AS. A strong prediction of this theory is that an agent can use its own AS to also infer the states of other agents' attention and consequently enhance coordination with other agents. As such, multi-agent reinforcement learning would be an ideal setting to experimentally test the validity of AST. We explore different ways in which attention and AS interact with each other. Our preliminary results indicate that agents that implement the AS as a recurrent internal control achieve the best performance. In general, these exploratory experiments suggest that equipping artificial agents with a model of attention can enhance their social intelligence.

cs.AI↗

arXiv2023

GFlowOut: Dropout with Generative Flow Networks

Bayesian Inference offers principled tools to tackle many critical problems with modern neural networks such as poor calibration and generalization, and data inefficiency. However, scaling Bayesian inference to large architectures is challenging and requires restrictive approximations. Monte Carlo Dropout has been widely used as a relatively cheap way for approximate Inference and to estimate uncertainty with deep neural networks. Traditionally, the dropout mask is sampled independently from a fixed distribution. Recent works show that the dropout mask can be viewed as a latent variable, which can be inferred with variational inference. These methods face two important challenges: (a) the posterior distribution over masks can be highly multi-modal which can be difficult to approximate with standard variational inference and (b) it is not trivial to fully utilize sample-dependent information and correlation among dropout masks to improve posterior estimation. In this work, we propose GFlowOut to address these issues. GFlowOut leverages the recently proposed probabilistic framework of Generative Flow Networks (GFlowNets) to learn the posterior distribution over dropout masks. We empirically demonstrate that GFlowOut results in predictive distributions that generalize better to out-of-distribution data, and provide uncertainty estimates which lead to better performance in downstream tasks.

cs.LG↗

arXiv2023

Enhancing Human Capabilities through Symbiotic Artificial Intelligence with Shared Sensory Experiences

The merging of human intelligence and artificial intelligence has long been a subject of interest in both science fiction and academia. In this paper, we introduce a novel concept in Human-AI interaction called Symbiotic Artificial Intelligence with Shared Sensory Experiences (SAISSE), which aims to establish a mutually beneficial relationship between AI systems and human users through shared sensory experiences. By integrating multiple sensory input channels and processing human experiences, SAISSE fosters a strong human-AI bond, enabling AI systems to learn from and adapt to individual users, providing personalized support, assistance, and enhancement. Furthermore, we discuss the incorporation of memory storage units for long-term growth and development of both the AI system and its human user. As we address user privacy and ethical guidelines for responsible AI-human symbiosis, we also explore potential biases and inequalities in AI-human symbiosis and propose strategies to mitigate these challenges. Our research aims to provide a comprehensive understanding of the SAISSE concept and its potential to effectively support and enhance individual human users through symbiotic AI systems. This position article aims at discussing poteintial AI-human interaction related topics within the scientific community, rather than providing experimental or theoretical results.

cs.HC↗

arXiv2023

A Transformer-based Deep Learning Algorithm to Auto-record Undocumented Clinical One-Lung Ventilation Events

As a team studying the predictors of complications after lung surgery, we have encountered high missingness of data on one-lung ventilation (OLV) start and end times due to high clinical workload and cognitive overload during surgery. Such missing data limit the precision and clinical applicability of our findings. We hypothesized that available intraoperative mechanical ventilation and physiological time-series data combined with other clinical events could be used to accurately predict missing start and end times of OLV. Such a predictive model can recover existing miss-documented records and relieves the documentation burden by deploying it in clinical settings. To this end, we develop a deep learning model to predict the occurrence and timing of OLV based on routinely collected intraoperative data. Our approach combines the variables' spatial and frequency domain features, using Transformer encoders to model the temporal evolution and convolutional neural network to abstract frequency-of-interest from wavelet spectrum images. The performance of the proposed method is evaluated on a benchmark dataset curated from Massachusetts General Hospital (MGH) and Brigham and Women's Hospital (BWH). Experiments show our approach outperforms baseline methods significantly and produces a satisfactory accuracy for clinical use.

eess.SP↗

arXiv2023

Construction of extra-large scale screening tools for risks of severe mental illnesses using real world healthcare data

Importance: The prevalence of severe mental illnesses (SMIs) in the United States is approximately 3% of the whole population. The ability to conduct risk screening of SMIs at large scale could inform early prevention and treatment. Objective: A scalable machine learning based tool was developed to conduct population-level risk screening for SMIs, including schizophrenia, schizoaffective disorders, psychosis, and bipolar disorders,using 1) healthcare insurance claims and 2) electronic health records (EHRs). Design, setting and participants: Data from beneficiaries from a nationwide commercial healthcare insurer with 77.4 million members and data from patients from EHRs from eight academic hospitals based in the U.S. were used. First, the predictive models were constructed and tested using data in case-control cohorts from insurance claims or EHR data. Second, performance of the predictive models across data sources were analyzed. Third, as an illustrative application, the models were further trained to predict risks of SMIs among 18-year old young adults and individuals with substance associated conditions. Main outcomes and measures: Machine learning-based predictive models for SMIs in the general population were built based on insurance claims and EHR.

cs.AI↗

arXiv2022

Graph-Based Active Machine Learning Method for Diverse and Novel Antimicrobial Peptides Generation and Selection

As antibiotic-resistant bacterial strains are rapidly spreading worldwide, infections caused by these strains are emerging as a global crisis causing the death of millions of people every year. Antimicrobial Peptides (AMPs) are one of the candidates to tackle this problem because of their potential diversity, and ability to favorably modulate the host immune response. However, large-scale screening of new AMP candidates is expensive, time-consuming, and now affordable in developing countries, which need the treatments the most. In this work, we propose a novel active machine learning-based framework that statistically minimizes the number of wet-lab experiments needed to design new AMPs, while ensuring a high diversity and novelty of generated AMPs sequences, in multi-rounds of wet-lab AMP screening settings. Combining recurrent neural network models and a graph-based filter (GraphCC), our proposed approach delivers novel and diverse candidates and demonstrates better performances according to our defined metrics.

q-bio.BM↗

arXiv2022

Coordinating Policies Among Multiple Agents via an Intelligent Communication Channel

In Multi-Agent Reinforcement Learning (MARL), specialized channels are often introduced that allow agents to communicate directly with one another. In this paper, we propose an alternative approach whereby agents communicate through an intelligent facilitator that learns to sift through and interpret signals provided by all agents to improve the agents' collective performance. To ensure that this facilitator does not become a centralized controller, agents are incentivized to reduce their dependence on the messages it conveys, and the messages can only influence the selection of a policy from a fixed set, not instantaneous actions given the policy. We demonstrate the strength of this architecture over existing baselines on several cooperative MARL environments.

cs.AI↗

arXiv2022

FedILC: Weighted Geometric Mean and Invariant Gradient Covariance for Federated Learning on Non-IID Data

Federated learning is a distributed machine learning approach which enables a shared server model to learn by aggregating the locally-computed parameter updates with the training data from spatially-distributed client silos. Though successfully possessing advantages in both scale and privacy, federated learning is hurt by domain shift problems, where the learning models are unable to generalize to unseen domains whose data distribution is non-i.i.d. with respect to the training domains. In this study, we propose the Federated Invariant Learning Consistency (FedILC) approach, which leverages the gradient covariance and the geometric mean of Hessians to capture both inter-silo and intra-silo consistencies of environments and unravel the domain shift problems in federated networks. The benchmark and real-world dataset experiments bring evidence that our proposed algorithm outperforms conventional baselines and similar federated learning algorithms. This is relevant to various fields such as medical healthcare, computer vision, and the Internet of Things (IoT). The code is released at https://github.com/mikemikezhu/FedILC.

cs.LG↗

arXiv2022

Adaptive Discrete Communication Bottlenecks with Dynamic Vector Quantization

Vector Quantization (VQ) is a method for discretizing latent representations and has become a major part of the deep learning toolkit. It has been theoretically and empirically shown that discretization of representations leads to improved generalization, including in reinforcement learning where discretization can be used to bottleneck multi-agent communication to promote agent specialization and robustness. The discretization tightness of most VQ-based methods is defined by the number of discrete codes in the representation vector and the codebook size, which are fixed as hyperparameters. In this work, we propose learning to dynamically select discretization tightness conditioned on inputs, based on the hypothesis that data naturally contains variations in complexity that call for different levels of representational coarseness. We show that dynamically varying tightness in communication bottlenecks can improve model performance on visual reasoning and reinforcement learning tasks.

cs.LG↗

arXiv2021

HBert + BiasCorp -- Fighting Racism on the Web

Subtle and overt racism is still present both in physical and online communities today and has impacted many lives in different segments of the society. In this short piece of work, we present how we're tackling this societal issue with Natural Language Processing. We are releasing BiasCorp, a dataset containing 139,090 comments and news segment from three specific sources - Fox News, BreitbartNews and YouTube. The first batch (45,000 manually annotated) is ready for publication. We are currently in the final phase of manually labeling the remaining dataset using Amazon Mechanical Turk. BERT has been used widely in several downstream tasks. In this work, we present hBERT, where we modify certain layers of the pretrained BERT model with the new Hopfield Layer. hBert generalizes well across different distributions with the added advantage of a reduced model complexity. We are also releasing a JavaScript library and a Chrome Extension Application, to help developers make use of our trained model in web applications (say chat application) and for users to identify and report racially biased contents on the web respectively.

cs.CL↗

arXiv2021

Discrete-Valued Neural Communication

Deep learning has advanced from fully connected architectures to structured models organized into components, e.g., the transformer composed of positional elements, modular architectures divided into slots, and graph neural nets made up of nodes. In structured models, an interesting question is how to conduct dynamic and possibly sparse communication among the separate components. Here, we explore the hypothesis that restricting the transmitted information among components to discrete representations is a beneficial bottleneck. The motivating intuition is human language in which communication occurs through discrete symbols. Even though individuals have different understandings of what a "cat" is based on their specific experiences, the shared discrete token makes it possible for communication among individuals to be unimpeded by individual differences in internal representation. To discretize the values of concepts dynamically communicated among specialist components, we extend the quantization mechanism from the Vector-Quantized Variational Autoencoder to multi-headed discretization with shared codebooks and use it for discrete-valued neural communication (DVNC). Our experiments show that DVNC substantially improves systematic generalization in a variety of architectures -- transformers, modular architectures, and graph neural networks. We also show that the DVNC is robust to the choice of hyperparameters, making the method very useful in practice. Moreover, we establish a theoretical justification of our discretization process, proving that it has the ability to increase noise robustness and reduce the underlying dimensionality of the model.

cs.LG↗

arXiv2020

FakeSafe: Human Level Data Protection by Disinformation Mapping using Cycle-consistent Adversarial Network

The concept of disinformation is to use fake messages to confuse people in order to protect the real information. This strategy can be adapted into data science to protect valuable private and sensitive data. Huge amount of private data are being generated from personal devices such as smart phone and wearable in recent years. Being able to utilize these personal data will bring big opportunities to design personalized products, conduct precision healthcare and many other tasks that were impossible in the past. However, due to privacy, safety and regulation reasons, it is often difficult to transfer or store data in its original form while keeping them safe. Building a secure data transfer and storage infrastructure to preserving privacy is costly in most cases and there is always a concern of data security due to human errors. In this study, we propose a method, named FakeSafe, to provide human level data protection using generative adversarial network with cycle consistency and conducted experiments using both benchmark and real world data sets to illustrate potential applications of FakeSafe.

cs.AI↗

arXiv2020

Confederated Machine Learning on Horizontally and Vertically Separated Medical Data for Large-Scale Health System Intelligence

Health information is generally fragmented across silos. Though it is technically feasible to unite data for analysis in a manner that underpins a rapid learning healthcare system, privacy concerns and regulatory barriers limit data centralization. Machine learning can be conducted in a federated manner on patient datasets with the same set of variables, but separated across sites of care. But federated learning cannot handle the situation where different data types for a given patient are separated vertically across different organizations and when patient ID matching across different institutions is difficult. We call methods that enable machine learning model training on data separated by two or more degrees confederated machine learning. We proposed and evaluated a confederated learning to training machine learning model to stratify the risk of several diseases among when data are horizontally separated by individual, vertically separated by data type, and separated by identity without patient ID matching.

cs.LG↗