AI-assisted Knowledge Discovery in Biomedical Literature to Support Decision-making in Precision Oncology

The delivery of appropriate targeted therapies to cancer patients requires the complete analysis of the molecular profiling of tumors and the patient's clinical characteristics in the context of existing knowledge and recent findings described in biomedical literature and several other sources. We evaluated the potential contributions of specific natural language processing solutions to support knowledge discovery from biomedical literature. Two models from the Bidirectional Encoder Representations from Transformers (BERT) family, two Large Language Models, and PubTator 3.0 were tested for their ability to support the named entity recognition (NER) and the relation extraction (RE) tasks. PubTator 3.0 and the BioBERT model performed best in the NER task (best F1-score equal to 0.93 and 0.89, respectively), while BioBERT outperformed all other solutions in the RE task (best F1-score 0.79) and a specific use case it was applied to by recognizing nearly all entity mentions and most of the relations.

Overlay-based Decentralized Federated Learning in Bandwidth-limited Networks

The emerging machine learning paradigm of decentralized federated learning (DFL) has the promise of greatly boosting the deployment of artificial intelligence (AI) by directly learning across distributed agents without centralized coordination. Despite significant efforts on improving the communication efficiency of DFL, most existing solutions were based on the simplistic assumption that neighboring agents are physically adjacent in the underlying communication network, which fails to correctly capture the communication cost when learning over a general bandwidth-limited network, as encountered in many edge networks. In this work, we address this gap by leveraging recent advances in network tomography to jointly design the communication demands and the communication schedule for overlay-based DFL in bandwidth-limited networks without requiring explicit cooperation from the underlying network. By carefully analyzing the structure of our problem, we decompose it into a series of optimization problems that can each be solved efficiently, to collectively minimize the total training time. Extensive data-driven simulations show that our solution can significantly accelerate DFL in comparison with state-of-the-art designs.

Active Learning for WBAN-based Health Monitoring

We consider a novel active learning problem motivated by the need of learning machine learning models for health monitoring in wireless body area network (WBAN). Due to the limited resources at body sensors, collecting each unlabeled sample in WBAN incurs a nontrivial cost. Moreover, training health monitoring models typically requires labels indicating the patient's health state that need to be generated by healthcare professionals, which cannot be obtained at the same pace as data collection. These challenges make our problem fundamentally different from classical active learning, where unlabeled samples are free and labels can be queried in real time. To handle these challenges, we propose a two-phased active learning method, consisting of an online phase where a coreset construction algorithm is proposed to select a subset of unlabeled samples based on their noisy predictions, and an offline phase where the selected samples are labeled to train the target model. The samples selected by our algorithm are proved to yield a guaranteed error in approximating the full dataset in evaluating the loss function. Our evaluation based on real health monitoring data and our own experimentation demonstrates that our solution can drastically save the data curation cost without sacrificing the quality of the target model.

Energy-efficient Decentralized Learning via Graph Sparsification

This work aims at improving the energy efficiency of decentralized learning by optimizing the mixing matrix, which controls the communication demands during the learning process. Through rigorous analysis based on a state-of-the-art decentralized learning algorithm, the problem is formulated as a bi-level optimization, with the lower level solved by graph sparsification. A solution with guaranteed performance is proposed for the special case of fully-connected base topology and a greedy heuristic is proposed for the general case. Simulations based on real topology and dataset show that the proposed solution can lower the energy consumption at the busiest node by 54%-76% while maintaining the quality of the trained model.

Joint Coreset Construction and Quantization for Distributed Machine Learning

Coresets are small, weighted summaries of larger datasets, aiming at providing provable error bounds for machine learning (ML) tasks while significantly reducing the communication and computation costs. To achieve a better trade-off between ML error bounds and costs, we propose the first framework to incorporate quantization techniques into the process of coreset construction. Specifically, we theoretically analyze the ML error bounds caused by a combination of coreset construction and quantization. Based on that, we formulate an optimization problem to minimize the ML error under a fixed budget of communication cost. To improve the scalability for large datasets, we identify two proxies of the original objective function, for which efficient algorithms are developed. For the case of data on multiple nodes, we further design a novel algorithm to allocate the communication budget to the nodes while minimizing the overall ML error. Through extensive experiments on multiple real-world datasets, we demonstrate the effectiveness and efficiency of our proposed algorithms for a variety of ML tasks. In particular, our algorithms have achieved more than 90% data reduction with less than 10% degradation in ML performance in most cases.

Communication-efficient k-Means for Edge-based Machine Learning

We consider the problem of computing the k-means centers for a large high-dimensional dataset in the context of edge-based machine learning, where data sources offload machine learning computation to nearby edge servers. k-Means computation is fundamental to many data analytics, and the capability of computing provably accurate k-means centers by leveraging the computation power of the edge servers, at a low communication and computation cost to the data sources, will greatly improve the performance of these analytics. We propose to let the data sources send small summaries, generated by joint dimensionality reduction (DR) and cardinality reduction (CR), to support approximate k-means computation at reduced complexity and communication cost. By analyzing the complexity, the communication cost, and the approximation error of k-means algorithms based on state-of-the-art DR/CR methods, we show that: (i) it is possible to achieve a near-optimal approximation at a near-linear complexity and a constant or logarithmic communication cost, (ii) the order of applying DR and CR significantly affects the complexity and the communication cost, and (iii) combining DR/CR methods with a properly configured quantizer can further reduce the communication cost without compromising the other performance metrics. Our findings are validated through experiments based on real datasets.

Sharing Models or Coresets: A Study based on Membership Inference Attack

Distributed machine learning generally aims at training a global model based on distributed data without collecting all the data to a centralized location, where two different approaches have been proposed: collecting and aggregating local models (federated learning) and collecting and training over representative data summaries (coreset). While each approach preserves data privacy to some extent thanks to not sharing the raw data, the exact extent of protection is unclear under sophisticated attacks that try to infer the raw data from the shared information. We present the first comparison between the two approaches in terms of target model accuracy, communication cost, and data privacy, where the last is measured by the accuracy of a state-of-the-art attack strategy called the membership inference attack. Our experiments quantify the accuracy-privacy-cost tradeoff of each approach, and reveal a nontrivial comparison that can be used to guide the design of model training processes.

Online Learning of Facility Locations

In this paper, we provide a rigorous theoretical investigation of an online learning version of the Facility Location problem which is motivated by emerging problems in real-world applications. In our formulation, we are given a set of sites and an online sequence of user requests. At each trial, the learner selects a subset of sites and then incurs a cost for each selected site and an additional cost which is the price of the user's connection to the nearest site in the selected subset. The problem may be solved by an application of the well-known Hedge algorithm. This would, however, require time and space exponential in the number of the given sites, which motivates our design of a novel quasi-linear time algorithm for this problem, with good theoretical guarantees on its performance.

Robust Coreset Construction for Distributed Machine Learning

Motivated by the need of solving machine learning problems over distributed datasets, we explore the use of coreset to reduce the communication overhead. Coreset is a summary of the original dataset in the form of a small weighted set in the same sample space. Compared to other data summaries, coreset has the advantage that it can be used as a proxy of the original dataset, potentially for different applications. However, existing coreset construction algorithms are each tailor-made for a specific machine learning problem. Thus, to solve different machine learning problems, one has to collect coresets of different types, defeating the purpose of saving communication overhead. We resolve this dilemma by developing coreset construction algorithms based on k-means/median clustering, that give a provably good approximation for a broad range of machine learning problems with sufficiently continuous cost functions. Through evaluations on diverse datasets and machine learning problems, we verify the robust performance of the proposed algorithms.

Adaptive Federated Learning in Resource Constrained Edge Computing Systems

Emerging technologies and applications including Internet of Things (IoT), social networking, and crowd-sourcing generate large amounts of data at the network edge. Machine learning models are often built from the collected data, to enable the detection, classification, and prediction of future events. Due to bandwidth, storage, and privacy concerns, it is often impractical to send all the data to a centralized location. In this paper, we consider the problem of learning model parameters from data distributed across multiple edge nodes, without sending raw data to a centralized place. Our focus is on a generic class of machine learning models that are trained using gradient-descent based approaches. We analyze the convergence bound of distributed gradient descent from a theoretical point of view, based on which we propose a control algorithm that determines the best trade-off between local update and global parameter aggregation to minimize the loss function under a given resource budget. The performance of the proposed algorithm is evaluated via extensive experiments with real datasets, both on a networked prototype system and in a larger-scale simulated environment. The experimentation results show that our proposed approach performs near to the optimum with various machine learning models and different data distributions.