pwc-archive/papers-with-abstracts huggingface dataset:
TCR-GPT: Integrating Autoregressive Model and Reinforcement Learning for T-Cell Receptor Repertoires Generation
Authors: Yicheng Lin, Dandan Zhang, Yun Liu
Date: 2024-08-02 00:00:00
Tasks: Decoder, Reinforcement Learning (RL)

T-cell receptors (TCRs) play a crucial role in the immune system by recognizing and binding to specific antigens presented by infected or cancerous cells. Understanding the sequence patterns of TCRs is essential for developing targeted immune therapies and designing effective vaccines. Language models, such as auto-regressive transformers, offer a powerful solution to this problem by learning the probability distributions of TCR repertoires, enabling the generation of new TCR sequences that inherit the underlying patterns of the repertoire. We introduce TCR-GPT, a probabilistic model built on a decoder-only transformer architecture, designed to uncover and replicate sequence patterns in TCR repertoires. TCR-GPT demonstrates an accuracy of 0.953 in inferring sequence probability distributions measured by Pearson correlation coefficient. Furthermore, by leveraging Reinforcement Learning(RL), we adapted the distribution of TCR sequences to generate TCRs capable of recognizing specific peptides, offering significant potential for advancing targeted immune therapies and vaccine development. With the efficacy of RL, fine-tuned pretrained TCR-GPT models demonstrated the ability to produce TCR repertoires likely to bind specific peptides, illustrating RL's efficiency in enhancing the model's adaptability to the probability distributions of biologically relevant TCR sequences.
Misinforming LLMs: vulnerabilities, challenges and opportunities
Authors: Bo Zhou, Daniel Geißler, Paul Lukowicz
Date: 2024-08-02 00:00:00
Tasks: Hallucination, Misinformation, Word Embeddings

Large Language Models (LLMs) have made significant advances in natural language processing, but their underlying mechanisms are often misunderstood. Despite exhibiting coherent answers and apparent reasoning behaviors, LLMs rely on statistical patterns in word embeddings rather than true cognitive processes. This leads to vulnerabilities such as "hallucination" and misinformation. The paper argues that current LLM architectures are inherently untrustworthy due to their reliance on correlations of sequential patterns of word embedding vectors. However, ongoing research into combining generative transformer-based models with fact bases and logic programming languages may lead to the development of trustworthy LLMs capable of generating statements based on given truth and explaining their self-reasoning process.
Optimizing Variational Quantum Circuits Using Metaheuristic Strategies in Reinforcement Learning
Authors: Michael Kölle, Daniel Seidl, Maximilian Zorn, Philipp Altmann, Jonas Stein, Thomas Gabor
Date: 2024-08-02 00:00:00
Tasks: reinforcement-learning, Reinforcement Learning

Quantum Reinforcement Learning (QRL) offers potential advantages over classical Reinforcement Learning, such as compact state space representation and faster convergence in certain scenarios. However, practical benefits require further validation. QRL faces challenges like flat solution landscapes, where traditional gradient-based methods are inefficient, necessitating the use of gradient-free algorithms. This work explores the integration of metaheuristic algorithms -- Particle Swarm Optimization, Ant Colony Optimization, Tabu Search, Genetic Algorithm, Simulated Annealing, and Harmony Search -- into QRL. These algorithms provide flexibility and efficiency in parameter optimization. Evaluations in $5\times5$ MiniGrid Reinforcement Learning environments show that, all algorithms yield near-optimal results, with Simulated Annealing and Particle Swarm Optimization performing best. In the Cart Pole environment, Simulated Annealing, Genetic Algorithms, and Particle Swarm Optimization achieve optimal results, while the others perform slightly better than random action selection. These findings demonstrate the potential of Particle Swarm Optimization and Simulated Annealing for efficient QRL learning, emphasizing the need for careful algorithm selection and adaptation.
High-Throughput Phenotyping of Clinical Text Using Large Language Models
Authors: Daniel B. Hier, S. Ilyas Munzir, Anne Stahlfeld, Tayo Obafemi-Ajayi, Michael D. Carrithers
Date: 2024-08-02 00:00:00

High-throughput phenotyping automates the mapping of patient signs to standardized ontology concepts and is essential for precision medicine. This study evaluates the automation of phenotyping of clinical summaries from the Online Mendelian Inheritance in Man (OMIM) database using large language models. Due to their rich phenotype data, these summaries can be surrogates for physician notes. We conduct a performance comparison of GPT-4 and GPT-3.5-Turbo. Our results indicate that GPT-4 surpasses GPT-3.5-Turbo in identifying, categorizing, and normalizing signs, achieving concordance with manual annotators comparable to inter-rater agreement. Despite some limitations in sign normalization, the extensive pre-training of GPT-4 results in high performance and generalizability across several phenotyping tasks while obviating the need for manually annotated training data. Large language models are expected to be the dominant method for automating high-throughput phenotyping of clinical text.
Tailoring Graph Neural Network-based Flow-guided Localization to Individual Bloodstreams and Activities
Authors: Pablo Galván, Filip Lemic, Gerard Calvo Bartra, Sergi Abadal, Xavier Costa Pérez
Date: 2024-08-02 00:00:00
Tasks: Diagnostic, Diversity, Graph Neural Network

Flow-guided localization using in-body nanodevices in the bloodstream is expected to be beneficial for early disease detection, continuous monitoring of biological conditions, and targeted treatment. The nanodevices face size and power constraints that produce erroneous raw data for localization purposes. On-body anchors receive this data, and use it to derive the locations of diagnostic events of interest. Different Machine Learning (ML) approaches have been recently proposed for this task, yet they are currently restricted to a reference bloodstream of a resting patient. As such, they are unable to deal with the physical diversity of patients' bloodstreams and cannot provide continuous monitoring due to changes in individual patient's activities. Toward addressing these issues for the current State-of-the-Art (SotA) flow-guided localization approach based on Graph Neural Networks (GNNs), we propose a pipeline for GNN adaptation based on individual physiological indicators including height, weight, and heart rate. Our results indicate that the proposed adaptions are beneficial in reconciling the individual differences between bloodstreams and activities.
Deep progressive reinforcement learning-based flexible resource scheduling framework for IRS and UAV-assisted MEC system
Authors: Li Dong, Feibo Jiang, Minjie Wang, Yubo Peng, Xiaolong Li
Date: 2024-08-02 00:00:00
Tasks: Edge-computing, Scheduling

The intelligent reflection surface (IRS) and unmanned aerial vehicle (UAV)-assisted mobile edge computing (MEC) system is widely used in temporary and emergency scenarios. Our goal is to minimize the energy consumption of the MEC system by jointly optimizing UAV locations, IRS phase shift, task offloading, and resource allocation with a variable number of UAVs. To this end, we propose a Flexible REsource Scheduling (FRES) framework by employing a novel deep progressive reinforcement learning which includes the following innovations: Firstly, a novel multi-task agent is presented to deal with the mixed integer nonlinear programming (MINLP) problem. The multi-task agent has two output heads designed for different tasks, in which a classified head is employed to make offloading decisions with integer variables while a fitting head is applied to solve resource allocation with continuous variables. Secondly, a progressive scheduler is introduced to adapt the agent to the varying number of UAVs by progressively adjusting a part of neurons in the agent. This structure can naturally accumulate experiences and be immune to catastrophic forgetting. Finally, a light taboo search (LTS) is introduced to enhance the global search of the FRES. The numerical results demonstrate the superiority of the FRES framework which can make real-time and optimal resource scheduling even in dynamic MEC systems.
Detection and Characterization of Coordinated Online Behavior: A Survey
Authors: Lorenzo Mannocci, Michele Mazza, Anna Monreale, Maurizio Tesconi, Stefano Cresci
Date: 2024-08-02 00:00:00
Tasks: Survey

Coordination is a fundamental aspect of life. The advent of social media has made it integral also to online human interactions, such as those that characterize thriving online communities and social movements. At the same time, coordination is also core to effective disinformation, manipulation, and hate campaigns. This survey collects, categorizes, and critically discusses the body of work produced as a result of the growing interest on coordinated online behavior. We reconcile industry and academic definitions, propose a comprehensive framework to study coordinated online behavior, and review and critically discuss the existing detection and characterization methods. Our analysis identifies open challenges and promising directions of research, serving as a guide for scholars, practitioners, and policymakers in understanding and addressing the complexities inherent to online coordination.
Designing the virtual CAT: A digital tool for algorithmic thinking assessment in compulsory education
Authors: Giorgia Adorni, Alberto Piatti
Date: 2024-08-02 00:00:00

Algorithmic thinking (AT) is a critical skill in today's digital society, and it is indispensable not only in computer science-related fields but also in everyday problem-solving. As a foundational component of digital education and literacy, fostering AT skills is increasingly relevant for all students and should become a standard part of compulsory education. However, successfully integrating AT into formal education requires effective teaching strategies and robust and scalable assessment procedures. In this paper, we present the design and development process of the virtual Cross Array Task (CAT), a digital adaptation of an unplugged assessment activity aimed at evaluating algorithmic skills in Swiss compulsory education. The development process followed iterative design cycles, incorporating expert evaluations to refine the tool's usability, accessibility and functionality. A participatory design study played a dual role in shaping the platform. First, it gathered valuable insights from end users, including students and teachers, to ensure the tool's relevance and practicality in classroom settings. Second, it facilitated the collection and preliminary analysis of data related to students' AT skills, providing an initial evaluation of the tool's assessment capabilities across various developmental stages. This was achieved through a pilot study involving a diverse group of students aged 4 to 12, spanning preschool to lower secondary school levels. The resulting instrument features multilingual support and includes both gesture-based and visual block-based programming interfaces, making it accessible to a broad range of learners. Findings from the pilot study demonstrate the platform's usability and accessibility, as well as its suitability for assessing AT skills, with preliminary results showing its ability to cater to diverse age groups and educational contexts.
A Decision-driven Methodology for Designing Uncertainty-aware AI Self-Assessment
Authors: Gregory Canal, Vladimir Leung, Philip Sage, Eric Heim, I-Jeng Wang
Date: 2024-08-02 00:00:00

Artificial intelligence (AI) has revolutionized decision-making processes and systems throughout society and, in particular, has emerged as a significant technology in high-impact scenarios of national interest. Yet, despite AI's impressive predictive capabilities in controlled settings, it still suffers from a range of practical setbacks preventing its widespread use in various critical scenarios. In particular, it is generally unclear if a given AI system's predictions can be trusted by decision-makers in downstream applications. To address the need for more transparent, robust, and trustworthy AI systems, a suite of tools has been developed to quantify the uncertainty of AI predictions and, more generally, enable AI to "self-assess" the reliability of its predictions. In this manuscript, we categorize methods for AI self-assessment along several key dimensions and provide guidelines for selecting and designing the appropriate method for a practitioner's needs. In particular, we focus on uncertainty estimation techniques that consider the impact of self-assessment on the choices made by downstream decision-makers and on the resulting costs and benefits of decision outcomes. To demonstrate the utility of our methodology for self-assessment design, we illustrate its use for two realistic national-interest scenarios. This manuscript is a practical guide for machine learning engineers and AI system users to select the ideal self-assessment techniques for each problem.
Synergistic pathways of modulation enable robust task packing within neural dynamics
Date: 2024-08-02 00:00:00

Understanding how brain networks learn and manage multiple tasks simultaneously is of interest in both neuroscience and artificial intelligence. In this regard, a recent research thread in theoretical neuroscience has focused on how recurrent neural network models and their internal dynamics enact multi-task learning. To manage different tasks requires a mechanism to convey information about task identity or context into the model, which from a biological perspective may involve mechanisms of neuromodulation. In this study, we use recurrent network models to probe the distinctions between two forms of contextual modulation of neural dynamics, at the level of neuronal excitability and at the level of synaptic strength. We characterize these mechanisms in terms of their functional outcomes, focusing on their robustness to context ambiguity and, relatedly, their efficiency with respect to packing multiple tasks into finite size networks. We also demonstrate distinction between these mechanisms at the level of the neuronal dynamics they induce. Together, these characterizations indicate complementarity and synergy in how these mechanisms act, potentially over multiple time-scales, toward enhancing robustness of multi-task learning.
Pre-trained Language Models Improve the Few-shot Prompt Ability of Decision Transformer
Date: 2024-08-02 00:00:00

Decision Transformer (DT) has emerged as a promising class of algorithms in offline reinforcement learning (RL) tasks, leveraging pre-collected datasets and Transformer's capability to model long sequences. Recent works have demonstrated that using parts of trajectories from training tasks as prompts in DT enhances its performance on unseen tasks, giving rise to Prompt-DT methods. However, collecting data from specific environments can be both costly and unsafe in many scenarios, leading to suboptimal performance and limited few-shot prompt abilities due to the data-hungry nature of Transformer-based models. Additionally, the limited datasets used in pre-training make it challenging for Prompt-DT type of methods to distinguish between various RL tasks through prompts alone. To address these challenges, we introduce the Language model-initialized Prompt Decision Transformer (LPDT), which leverages pre-trained language models for meta-RL tasks and fine-tunes the model using Low-rank Adaptation (LoRA). We further incorporate prompt regularization to effectively differentiate between tasks based on prompt feature representations. Our approach integrates pre-trained language model and RL tasks seamlessly. Extensive empirical studies demonstrate that initializing with a pre-trained language model significantly enhances the performance of Prompt-DT on unseen tasks compared to baseline methods.
The Quest for the Right Mediator: A History, Survey, and Theoretical Grounding of Causal Interpretability
Date: 2024-08-02 00:00:00

Interpretability provides a toolset for understanding how and why neural networks behave in certain ways. However, there is little unity in the field: most studies employ ad-hoc evaluations and do not share theoretical foundations, making it difficult to measure progress and compare the pros and cons of different techniques. Furthermore, while mechanistic understanding is frequently discussed, the basic causal units underlying these mechanisms are often not explicitly defined. In this paper, we propose a perspective on interpretability research grounded in causal mediation analysis. Specifically, we describe the history and current state of interpretability taxonomized according to the types of causal units (mediators) employed, as well as methods used to search over mediators. We discuss the pros and cons of each mediator, providing insights as to when particular kinds of mediators and search methods are most appropriate depending on the goals of a given study. We argue that this framing yields a more cohesive narrative of the field, as well as actionable insights for future work. Specifically, we recommend a focus on discovering new mediators with better trade-offs between human-interpretability and compute-efficiency, and which can uncover more sophisticated abstractions from neural networks than the primarily linear mediators employed in current work. We also argue for more standardized evaluations that enable principled comparisons across mediator types, such that we can better understand when particular causal units are better suited to particular use cases.
Temporal Transfer Learning for Traffic Optimization with Coarse-grained Advisory Autonomy
Authors: Jung-Hoon Cho, Sirui Li, Jeongyun Kim, Cathy Wu
Date: 2023-11-27 00:00:00
Tasks: Deep Reinforcement Learning, Reinforcement Learning (RL), Transfer Learning

The recent development of connected and automated vehicle (CAV) technologies has spurred investigations to optimize dense urban traffic to maximize vehicle speed and throughput. This paper explores advisory autonomy, in which real-time driving advisories are issued to the human drivers, thus achieving near-term performance of automated vehicles. Due to the complexity of traffic systems, recent studies of coordinating CAVs have resorted to leveraging deep reinforcement learning (RL). Coarse-grained advisory is formalized as zero-order holds, and we consider a range of hold duration from 0.1 to 40 seconds. However, despite the similarity of the higher frequency tasks on CAVs, a direct application of deep RL fails to be generalized to advisory autonomy tasks. To overcome this, we utilize zero-shot transfer, training policies on a set of source tasks--specific traffic scenarios with designated hold durations--and then evaluating the efficacy of these policies on different target tasks. We introduce Temporal Transfer Learning (TTL) algorithms to select source tasks for zero-shot transfer, systematically leveraging the temporal structure to solve the full range of tasks. TTL selects the most suitable source tasks to maximize the performance of the range of tasks. We validate our algorithms on diverse mixed-traffic scenarios, demonstrating that TTL more reliably solves the tasks than baselines. This paper underscores the potential of coarse-grained advisory autonomy with TTL in traffic flow optimization.
A Survey on LoRA of Large Language Models
Authors: YUREN MAO, Yuhang Ge, Yijiang Fan, Wenyi Xu, Yu Mi, Zhonghao Hu, Yunjun Gao
Date: 2024-07-08 00:00:00
Tasks: Federated Learning, parameter-efficient fine-tuning, Privacy Preserving, Survey

Low-Rank Adaptation~(LoRA), which updates the dense neural network layers with pluggable low-rank matrices, is one of the best performed parameter efficient fine-tuning paradigms. Furthermore, it has significant advantages in cross-task generalization and privacy-preserving. Hence, LoRA has gained much attention recently, and the number of related literature demonstrates exponential growth. It is necessary to conduct a comprehensive overview of the current progress on LoRA. This survey categorizes and reviews the progress from the perspectives of (1) downstream adaptation improving variants that improve LoRA's performance on downstream tasks; (2) cross-task generalization methods that mix multiple LoRA plugins to achieve cross-task generalization; (3) efficiency-improving methods that boost the computation-efficiency of LoRA; (4) data privacy-preserving methods that use LoRA in federated learning; (5) application. Besides, this survey also discusses the future directions in this field. At last, we provide a Github page~\footnote{\href{https://github.com/ZJU-LLMs/Awesome-LoRAs.git}{https://github.com/ZJU-LLMs/Awesome-LoRAs.git}} for readers to check the updates and initiate discussions on this survey paper.
Social and Ethical Risks Posed by General-Purpose LLMs for Settling Newcomers in Canada
Authors: Isar Nejadgholi, Maryam Molamohammadi, Samir Bakhtawar
Date: 2024-07-15 00:00:00

The non-profit settlement sector in Canada supports newcomers in achieving successful integration. This sector faces increasing operational pressures amidst rising immigration targets, which highlights a need for enhanced efficiency and innovation, potentially through reliable AI solutions. The ad-hoc use of general-purpose generative AI, such as ChatGPT, might become a common practice among newcomers and service providers to address this need. However, these tools are not tailored for the settlement domain and can have detrimental implications for immigrants and refugees. We explore the risks that these tools might pose on newcomers to first, warn against the unguarded use of generative AI, and second, to incentivize further research and development in creating AI literacy programs as well as customized LLMs that are aligned with the preferences of the impacted communities. Crucially, such technologies should be designed to integrate seamlessly into the existing workflow of the settlement sector, ensuring human oversight, trustworthiness, and accountability.
Dilated convolution neural operator for multiscale partial differential equations
Authors: Bo Xu, Xinliang Liu, Lei Zhang
Date: 2024-07-16 00:00:00
Tasks: Operator learning

This paper introduces a data-driven operator learning method for multiscale partial differential equations, with a particular emphasis on preserving high-frequency information. Drawing inspiration from the representation of multiscale parameterized solutions as a combination of low-rank global bases (such as low-frequency Fourier modes) and localized bases over coarse patches (analogous to dilated convolution), we propose the Dilated Convolutional Neural Operator (DCNO). The DCNO architecture effectively captures both high-frequency and low-frequency features while maintaining a low computational cost through a combination of convolution and Fourier layers. We conduct experiments to evaluate the performance of DCNO on various datasets, including the multiscale elliptic equation, its inverse problem, Navier-Stokes equation, and Helmholtz equation. We show that DCNO strikes an optimal balance between accuracy and computational cost and offers a promising solution for multiscale operator learning.