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Retrieval-augmented generation has gained significant attention due to its ability to integrate relevant external knowledge, enhancing the accuracy and reliability of the LLMs' responses. Most of the existing methods apply a dynamic…

A novel graph-to-tree conversion mechanism called the deep-tree generation (DTG) algorithm is first proposed to predict text data represented by graphs. The DTG method can generate a richer and more accurate representation for nodes (or…

Retrieval augmented generation (RAG) combines the generative abilities of large language models (LLMs) with external knowledge sources to provide more accurate and up-to-date responses. Recent RAG advancements focus on improving retrieval…

Abstract Meaning Representation (AMR) parsing aims to extract an abstract semantic graph from a given sentence. The sequence-to-sequence approaches, which linearize the semantic graph into a sequence of nodes and edges and generate the…

Research shows that gene duplication followed by either repurposing or removal of duplicated genes is an important contributor to evolution of gene and protein interaction networks. We aim to identify which characteristics of a network can…

Modern generative models still lack human-level creativity, particularly in multi-branch diversity. Prior approaches to address this problem often incur heavy computation or strong dependency on model architecture. Therefore, we introduce…

Next-generation sequencing (NGS) technologies allow new methodologies for alternative splicing (AS) analysis. Current computational methods for AS from NGS data are mainly focused on predicting splice site junctions or de novo assembly of…

Understanding brain function represents a fundamental goal in neuroscience, with critical implications for therapeutic interventions and neural engineering applications. Computational modeling provides a quantitative framework for…

We study question answering in the domain of radio regulations, a legally sensitive and high-stakes area. We propose a telecom-specific Retrieval-Augmented Generation (RAG) pipeline and introduce, to our knowledge, the first multiple-choice…

Retrieval-Augmented Generation (RAG) is gaining recognition as one of the key technological axes for next generation information retrieval, owing to its ability to mitigate the hallucination phenomenon in Large Language Models (LLMs)and…

Graph embedding has been widely applied in areas such as network analysis, social network mining, recommendation systems, and bioinformatics. However, current graph construction methods often require the prior definition of neighborhood…

We consider the Wright-Fisher model for a population of $N$ individuals, each identified with a sequence of a finite number of sites, and single-crossover recombination between them. We trace back the ancestry of single individuals from the…

Accurate diagnosis and prognosis of Alzheimer's disease are crucial to develop new therapies and reduce the associated costs. Recently, with the advances of convolutional neural networks, methods have been proposed to automate these two…

The aim of this paper is to propose a novel estimation method of using genetic-predicted observations to estimate trans-ancestry genetic correlations, which describes how genetic architecture of complex traits varies among populations, in…

Retrieval-augmented generation (RAG) enhances large language models (LLMs) with external knowledge but incurs significant inference costs due to lengthy retrieved contexts. While context compression mitigates this issue, existing methods…

Given a set of graphs from some unknown family, we want to generate new graphs from that family. Recent methods use diffusion on either graph embeddings or the discrete space of nodes and edges. However, simple changes to embeddings (say,…

Recent technological advances coupled with large sample sets have uncovered many factors underlying the genetic basis of traits and the predisposition to complex disease, but much is left to discover. A common thread to most genetic…

As large language models (LLMs) become increasingly adopted on edge devices, Retrieval-Augmented Generation (RAG) is gaining prominence as a solution to address factual deficiencies and hallucinations by integrating external knowledge.…

This article provides a comprehensive systematic literature review of academic studies, industrial applications, and real-world deployments from 2018 to 2025, providing a practical guide and detailed overview of modern Retrieval-Augmented…

Graph-based retrieval-augmented generation (RAG) enriches large language models (LLMs) with external knowledge for long-context understanding and multi-hop reasoning, but existing methods face a granularity dilemma: fine-grained…