Multi-modal document retrieval is designed to identify and retrieve various forms of multi-modal content, such as figures, tables, charts, and layout information from extensive documents. Despite its significance, there is a notable lack of a robust benchmark to effectively evaluate the performance of systems in multi-modal document retrieval. To address this gap, this work introduces a new benchmark, named as MMDocIR, encompassing two distinct tasks: page-level and layout-level retrieval. The former focuses on localizing the most relevant pages within a long document, while the latter targets the detection of specific layouts, offering a more fine-grained granularity than whole-page analysis. A layout can refer to a variety of elements such as textual paragraphs, equations, figures, tables, or charts. The MMDocIR benchmark comprises a rich dataset featuring expertly annotated labels for 1,685 questions and bootstrapped labels for 173,843 questions, making it a pivotal resource for advancing multi-modal document retrieval for both training and evaluation. Through rigorous experiments, we reveal that (i) visual retrievers significantly outperform their text counterparts, (ii) MMDocIR train set can effectively benefit the training process of multi-modal document retrieval and (iii) text retrievers leveraging on VLM-text perform much better than those using OCR-text. These findings underscores the potential advantages of integrating visual elements for multi-modal document retrieval.

We propose a novel cooperative multi-agent reinforcement learning (MARL) approach for networked agents. In contrast to previous methods that rely on complete state information or joint observations, our agents must learn how to reach shared objectives under partial observability. During training, they collect individual rewards and approximate a team value function through local communication, resulting in cooperative behavior. To describe our problem, we introduce the networked dynamic partially observable Markov game framework, where agents communicate over a switching topology communication network. Our distributed method, DNA-MARL, uses a consensus mechanism for local communication and gradient descent for local computation. DNA-MARL increases the range of the possible applications of networked agents, being well-suited for real world domains that impose privacy and where the messages may not reach their recipients. We evaluate DNA-MARL across benchmark MARL scenarios. Our results highlight the superior performance of DNA-MARL over previous methods.

Classifying genome sequences based on metadata has been an active area of research in comparative genomics for decades with many important applications across the life sciences. Established methods for classifying genomes can be broadly grouped into sequence alignment-based and alignment-free models. Conventional alignment-based models rely on genome similarity measures calculated based on local sequence alignments or consistent ordering among sequences. However, such methods are computationally expensive when dealing with large ensembles of even moderately sized genomes. In contrast, alignment-free (AF) approaches measure genome similarity based on summary statistics in an unsupervised setting and are efficient enough to analyze large datasets. However, both alignment-based and AF methods typically assume fixed scoring rubrics that lack the flexibility to assign varying importance to different parts of the sequences based on prior knowledge. In this study, we integrate AI and network science approaches to develop a comparative genomic analysis framework that addresses these limitations. Our approach, termed the Genome Misclassification Network Analysis (GMNA), simultaneously leverages misclassified instances, a learned scoring rubric, and label information to classify genomes based on associated metadata and better understand potential drivers of misclassification. We evaluate the utility of the GMNA using Naive Bayes and convolutional neural network models, supplemented by additional experiments with transformer-based models, to construct SARS-CoV-2 sampling location classifiers using over 500,000 viral genome sequences and study the resulting network of misclassifications. We demonstrate the global health potential of the GMNA by leveraging the SARS-CoV-2 genome misclassification networks to investigate the role human mobility played in structuring geographic clustering of SARS-CoV-2.

Introduction: Substance use disorders (SUDs) have emerged as a pressing public health crisis in the United States, with adolescent substance use often leading to SUDs in adulthood. Effective strategies are needed to prevent this progression. To help in filling this need, we develop a novel and the first-ever absolute risk prediction model for cannabis use disorder (CUD) for adolescent or young adult cannabis users. Methods: We train a Bayesian machine learning model that provides a personalized CUD absolute risk for adolescent or young adult cannabis users using data from the National Longitudinal Study of Adolescent to Adult Health. Model performance is assessed using 5-fold cross-validation (CV) with area under the curve (AUC) and ratio of the expected to observed number of cases (E/O). External validation of the final model is conducted using two independent datasets. Results: The proposed model has five risk factors: biological sex, delinquency, and scores on personality traits of conscientiousness, neuroticism, and openness. For predicting CUD risk within five years of first cannabis use, AUC and E/O, computed via 5-fold CV, were 0.68 and 0.95, respectively. For the same type of prediction in external validation, AUC values were 0.64 and 0.75, with E/O values of 0.98 and 1, indicating good discrimination and calibration performances of the model. Discussion and Conclusion: The proposed model is the first absolute risk prediction model for an SUD. It can aid clinicians in identifying adolescent/youth substance users at a high risk of developing CUD in future for clinically appropriate interventions.

The rapid expansion of citizen science initiatives has led to a significant growth of biodiversity databases, and particularly presence-only (PO) observations. PO data are invaluable for understanding species distributions and their dynamics, but their use in a Species Distribution Model (SDM) is curtailed by sampling biases and the lack of information on absences. Poisson point processes are widely used for SDMs, with Maxent being one of the most popular methods. Maxent maximises the entropy of a probability distribution across sites as a function of predefined transformations of variables, called features. In contrast, neural networks and deep learning have emerged as a promising technique for automatic feature extraction from complex input variables. Arbitrarily complex transformations of input variables can be learned from the data efficiently through backpropagation and stochastic gradient descent (SGD). In this paper, we propose DeepMaxent, which harnesses neural networks to automatically learn shared features among species, using the maximum entropy principle. To do so, it employs a normalised Poisson loss where for each species, presence probabilities across sites are modelled by a neural network. We evaluate DeepMaxent on a benchmark dataset known for its spatial sampling biases, using PO data for calibration and presence-absence (PA) data for validation across six regions with different biological groups and covariates. Our results indicate that DeepMaxent performs better than Maxent and other leading SDMs across all regions and taxonomic groups. The method performs particularly well in regions of uneven sampling, demonstrating substantial potential to increase SDM performances. In particular, our approach yields more accurate predictions than traditional single-species models, which opens up new possibilities for methodological enhancement.

The exponential growth in the size and complexity of Large Language Models (LLMs) has introduced unprecedented challenges in their deployment and operational management. Traditional MLOps approaches often fail to efficiently handle the scale, resource requirements, and dynamic nature of these models. This research presents a novel framework that leverages Deep Neural Networks (DNNs) to optimize MLOps pipelines specifically for LLMs. Our approach introduces an intelligent system that automates deployment decisions, resource allocation, and pipeline optimization while maintaining optimal performance and cost efficiency. Through extensive experimentation across multiple cloud environments and deployment scenarios, we demonstrate significant improvements: 40% enhancement in resource utilization, 35% reduction in deployment latency, and 30% decrease in operational costs compared to traditional MLOps approaches. The framework's ability to adapt to varying workloads and automatically optimize deployment strategies represents a significant advancement in automated MLOps management for large-scale language models. Our framework introduces several novel components including a multi-stream neural architecture for processing heterogeneous operational metrics, an adaptive resource allocation system that continuously learns from deployment patterns, and a sophisticated deployment orchestration mechanism that automatically selects optimal strategies based on model characteristics and environmental conditions. The system demonstrates robust performance across various deployment scenarios, including multi-cloud environments, high-throughput production systems, and cost-sensitive deployments. Through rigorous evaluation using production workloads from multiple organizations, we validate our approach's effectiveness in reducing operational complexity while improving system reliability and cost efficiency.

Venezuelan banks have historically made credit card limit adjustment decisions manually through committees. However, since the number of credit card holders in Venezuela is expected to increase in the upcoming months due to economic improvements, manual decisions are starting to become unfeasible. In this project, a machine learning model that uses cost-sensitive learning is proposed to automate the task of handing out credit card limit increases. To accomplish this, several neural network and XGBoost models are trained and compared, leveraging Venezolano de Credito's data and using grid search with 10-fold cross-validation. The proposed model is ultimately chosen due to its superior balance of accuracy, cost-effectiveness, and interpretability. The model's performance is evaluated against the committee's decisions using Cohen's kappa coefficient, showing an almost perfect agreement.

Empirical risk minimization (ERM) is not robust to changes in the distribution of data. When the distribution of test data is different from that of training data, the problem is known as out-of-distribution generalization. Recently, two techniques have been developed for addressing out-of-distribution generalization in computer vision: weight averaging (WA) and sharpness-aware minimization (SAM). WA involves training multiple models with different hyperparameters and then averaging the weights of these models, which can significantly improve out-of-distribution generalization performance. SAM optimizes a neural network to find minima in flat regions, which have been proven to perform well under distribution shifts. While these techniques have made great progress, there is still room for improvement and further exploration. In this thesis, we propose increasing the model diversity in WA explicitly by introducing gradient similarity as a loss regularizer to further improve out-of-distribution generalization performance. We also propose combining WA and SAM to solve the problem of few-shot domain adaptation. Our extensive experiments on digits datasets (MNIST, SVHN, USPS, MNIST-M) and other domain adaptation datasets (VLCS, PACS) show that combining WA and SAM leads to improved out-of-distribution generalization performance and significantly increases few-shot domain adaptation accuracy.

Federated learning has become an important research area in 'private computing' due to the 'useable invisibility' of data during training. Inspired by Federated learning, the federated recommendation system has gradually become a new recommendation service architecture that can protect users' privacy. The use of user diagrams to enhance federated recommendations is a promising topic. How to use user diagrams to enhance federated recommendations is a promising research topic. However, it's a great challenge to construct a user diagram without compromising privacy in a federated learning scenario. Inspired by the simple idea that similar users often have the same attribute characteristics, we propose a personalized federated recommendation algorithm based on the user relationship graph constructed by the user text characteristics(Graph Federation Recommendation System based on User Text description Features, UFGraphFR). The method uses the embedding layer weight of the user's text feature description to construct the user relationship graph. It introduces the Transformer mechanism to capture the sequence modeling of the user's historical interaction sequence. Without access to user history interactions and specific user attributes, the federal learning privacy protection of data 'useable invisibility' is embodied. Preliminary experiments on some benchmark datasets demonstrate the superior performance of UFGraphFR. Our experiments show that this model can protect user privacy to some extent without affecting the performance of the recommendation system. The code will be easily available on https://github.com/trueWangSyutung/UFGraphFR.

Traditional Mixture-of-Experts (MoE) networks benefit from utilizing multiple smaller expert models as opposed to a single large network. However, these experts typically operate independently, leaving a question open about whether interconnecting these models could enhance the performance of MoE networks. In response, we introduce GRAPHMOE, a novel method aimed at augmenting the cognitive depth of language models via a self-rethinking mechanism constructed on Pseudo GraphMoE networks. GRAPHMOE employs a recurrent routing strategy to simulate iterative thinking steps, thereby facilitating the flow of information among expert nodes. We implement the GRAPHMOE architecture using Low-Rank Adaptation techniques (LoRA) and conduct extensive experiments on various benchmark datasets. The experimental results reveal that GRAPHMOE outperforms other LoRA based models, achieving state-of-the-art (SOTA) performance. Additionally, this study explores a novel recurrent routing strategy that may inspire further advancements in enhancing the reasoning capabilities of language models.