Related papers: Query Focused Multi-document Summarisation of Biom…

This paper presents Macquarie University's participation to the two most recent BioASQ Synergy Tasks (as per June 2022), and to the BioASQ10 Task~B (BioASQ10b), Phase~B. In these tasks, participating systems are expected to generate complex…

Task B Phase B of the 2019 BioASQ challenge focuses on biomedical question answering. Macquarie University's participation applies query-based multi-document extractive summarisation techniques to generate a multi-sentence answer given the…

This paper describes Macquarie University's contribution to the BioASQ Challenge (BioASQ 6b, Phase B). We focused on the extraction of the ideal answers, and the task was approached as an instance of query-based multi-document…

This paper presents Macquarie University's participation to the BioASQ Synergy Task, and BioASQ9b Phase B. In each of these tasks, our participation focused on the use of query-focused extractive summarisation to obtain the ideal answers to…

The current UMLS (Unified Medical Language System) Metathesaurus construction process for integrating over 200 biomedical source vocabularies is expensive and error-prone as it relies on the lexical algorithms and human editors for deciding…

In this paper, we detail our submission to the 2019, 7th year, BioASQ competition. We present our approach for Task-7b, Phase B, Exact Answering Task. These Question Answering (QA) tasks include Factoid, Yes/No, List Type Question…

In this paper we focus on constructing useful embeddings of textual information in vacancies and resumes, which we aim to incorporate as features into job to job seeker matching models alongside other features. We explain our task where…

We present a systematic investigation of layer-wise BERT activations for general-purpose text representations to understand what linguistic information they capture and how transferable they are across different tasks. Sentence-level…

Answer selection (AS) is an essential subtask in the field of natural language processing with an objective to identify the most likely answer to a given question from a corpus containing candidate answer sentences. A common approach to…

The automation of text summarisation of biomedical publications is a pressing need due to the plethora of information available on-line. This paper explores the impact of several supervised machine learning approaches for extracting…

This paper reports on the use of prompt engineering and GPT-3.5 for biomedical query-focused multi-document summarisation. Using GPT-3.5 and appropriate prompts, our system achieves top ROUGE-F1 results in the task of obtaining…

Biomedical Named Entity Recognition (NER) is a fundamental task of Biomedical Natural Language Processing for extracting relevant information from biomedical texts, such as clinical records, scientific publications, and electronic health…

In recent years, summarizers that incorporate domain knowledge into the process of text summarization have outperformed generic methods, especially for summarization of biomedical texts. However, construction and maintenance of domain…

Biomedical text mining and question-answering are essential yet highly demanding tasks, particularly in the face of the exponential growth of biomedical literature. In this work, we present our participation in the 13th edition of the…

We present a refined approach to biomedical question-answering (QA) services by integrating large language models (LLMs) with Multi-BERT configurations. By enhancing the ability to process and prioritize vast amounts of complex biomedical…

Macquarie University's contribution to the BioASQ challenge (Task 5b Phase B) focused on the use of query-based extractive summarisation techniques for the generation of the ideal answers. Four runs were submitted, with approaches ranging…

In this paper, we propose a novel approach for generating document embeddings using a combination of Sentence-BERT (SBERT) and RoBERTa, two state-of-the-art natural language processing models. Our approach treats sentences as tokens and…

BERT is inefficient for sentence-pair tasks such as clustering or semantic search as it needs to evaluate combinatorially many sentence pairs which is very time-consuming. Sentence BERT (SBERT) attempted to solve this challenge by learning…

We present AUEB's submissions to the BioASQ 6 document and snippet retrieval tasks (parts of Task 6b, Phase A). Our models use novel extensions to deep learning architectures that operate solely over the text of the query and candidate…

Sentence embedding is an important research topic in natural language processing (NLP) since it can transfer knowledge to downstream tasks. Meanwhile, a contextualized word representation, called BERT, achieves the state-of-the-art…