Enhancing Biomedical Lay Summarisation with External Knowledge Graphs

Previous approaches for automatic lay summarisation are exclusively reliant on the source article that, given it is written for a technical audience (e.g., researchers), is unlikely to explicitly define all technical concepts or state all of the background information that is relevant for a lay audience. We address this issue by augmenting eLife, an existing biomedical lay summarisation dataset, with article-specific knowledge graphs, each containing detailed information on relevant biomedical concepts. Using both automatic and human evaluations, we systematically investigate the effectiveness of three different approaches for incorporating knowledge graphs within lay summarisation models, with each method targeting a distinct area of the encoder-decoder model architecture. Our results confirm that integrating graph-based domain knowledge can significantly benefit lay summarisation by substantially increasing the readability of generated text and improving the explanation of technical concepts.Comment: Accepted to the EMNLP 2023 main conferenc

POLIS: a probabilistic summarisation logic for structured documents

PhDAs the availability of structured documents, formatted in markup languages such as SGML, RDF, or XML, increases, retrieval systems increasingly focus on the retrieval of document-elements, rather than entire documents. Additionally, abstraction layers in the form of formalised retrieval logics have allowed developers to include search facilities into numerous applications, without the need of having detailed knowledge of retrieval models. Although automatic document summarisation has been recognised as a useful tool for reducing the workload of information system users, very few such abstraction layers have been developed for the task of automatic document summarisation. This thesis describes the development of an abstraction logic for summarisation, called POLIS, which provides users (such as developers or knowledge engineers) with a high-level access to summarisation facilities. Furthermore, POLIS allows users to exploit the hierarchical information provided by structured documents. The development of POLIS is carried out in a step-by-step way. We start by defining a series of probabilistic summarisation models, which provide weights to document-elements at a user selected level. These summarisation models are those accessible through POLIS. The formal definition of POLIS is performed in three steps. We start by providing a syntax for POLIS, through which users/knowledge engineers interact with the logic. This is followed by a definition of the logics semantics. Finally, we provide details of an implementation of POLIS. The final chapters of this dissertation are concerned with the evaluation of POLIS, which is conducted in two stages. Firstly, we evaluate the performance of the summarisation models by applying POLIS to two test collections, the DUC AQUAINT corpus, and the INEX IEEE corpus. This is followed by application scenarios for POLIS, in which we discuss how POLIS can be used in specific IR tasks

COMPENDIUM: a text summarisation tool for generating summaries of multiple purposes, domains, and genres

In this paper, we present a Text Summarisation tool, compendium, capable of generating the most common types of summaries. Regarding the input, single- and multi-document summaries can be produced; as the output, the summaries can be extractive or abstractive-oriented; and finally, concerning their purpose, the summaries can be generic, query-focused, or sentiment-based. The proposed architecture for compendium is divided in various stages, making a distinction between core and additional stages. The former constitute the backbone of the tool and are common for the generation of any type of summary, whereas the latter are used for enhancing the capabilities of the tool. The main contributions of compendium with respect to the state-of-the-art summarisation systems are that (i) it specifically deals with the problem of redundancy, by means of textual entailment; (ii) it combines statistical and cognitive-based techniques for determining relevant content; and (iii) it proposes an abstractive-oriented approach for facing the challenge of abstractive summarisation. The evaluation performed in different domains and textual genres, comprising traditional texts, as well as texts extracted from the Web 2.0, shows that compendium is very competitive and appropriate to be used as a tool for generating summaries.This research has been supported by the project “Desarrollo de Técnicas Inteligentes e Interactivas de Minería de Textos” (PROMETEO/2009/119) and the project reference ACOMP/2011/001 from the Valencian Government, as well as by the Spanish Government (grant no. TIN2009-13391-C04-01)

Automated data analysis of unstructured grey literature in health research: A mapping review

\ua9 2023 The Authors. Research Synthesis Methods published by John Wiley & Sons Ltd. The amount of grey literature and ‘softer’ intelligence from social media or websites is vast. Given the long lead-times of producing high-quality peer-reviewed health information, this is causing a demand for new ways to provide prompt input for secondary research. To our knowledge, this is the first review of automated data extraction methods or tools for health-related grey literature and soft data, with a focus on (semi)automating horizon scans, health technology assessments (HTA), evidence maps, or other literature reviews. We searched six databases to cover both health- and computer-science literature. After deduplication, 10% of the search results were screened by two reviewers, the remainder was single-screened up to an estimated 95% sensitivity; screening was stopped early after screening an additional 1000 results with no new includes. All full texts were retrieved, screened, and extracted by a single reviewer and 10% were checked in duplicate. We included 84 papers covering automation for health-related social media, internet fora, news, patents, government agencies and charities, or trial registers. From each paper, we extracted data about important functionalities for users of the tool or method; information about the level of support and reliability; and about practical challenges and research gaps. Poor availability of code, data, and usable tools leads to low transparency regarding performance and duplication of work. Financial implications, scalability, integration into downstream workflows, and meaningful evaluations should be carefully planned before starting to develop a tool, given the vast amounts of data and opportunities those tools offer to expedite research

Missing Information, Unresponsive Authors, Experimental Flaws : The Impossibility of Assessing the Reproducibility of Previous Human Evaluations in NLP

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Coherent segmentation of video into syntactic regions

In this paper we report on our work in realising an approach to video shot matching which involves automatically segmenting video into abstract intertwinded shapes in such a way that there is temporal coherency. These shapes representing approximations of objects and background regions can then be matched giving fine-grained shot-shot matching. The main contributions of the paper are firstly the extension of our segmentation algorithm for still images to spatial segmentation in video, and secondly the introduction a measurement of temporal coherency of the spatial segmentation. This latter allows us to quantitatively demonstrate the effectiveness of our approach on real video data

Rethinking summarization and storytelling for modern social multimedia

Traditional summarization initiatives have been focused on specific types of documents such as articles, reviews, videos, image feeds, or tweets, a practice which may result in pigeonholing the summarization task in the context of modern, content-rich multimedia collections. Consequently, much of the research to date has revolved around mostly toy problems in narrow domains and working on single-source media types. We argue that summarization and story generation systems need to re-focus the problem space in order to meet the information needs in the age of user-generated content in different formats and languages. Here we create a framework for flexible multimedia storytelling. Narratives, stories, and summaries carry a set of challenges in big data and dynamic multi-source media that give rise to new research in spatial-temporal representation, viewpoint generation, and explanatio

Antecedent selection techniques for high-recall roreference resolution

We investigate methods to improve the recall in coreference resolution by also trying to resolve those definite descriptions where no earlier mention of the referent shares the same lexical head (coreferent bridging). The problem, which is notably harder than identifying coreference relations among mentions which have the same lexical head, has been tackled with several rather different approaches, and we attempt to provide a meaningful classification along with a quantitative comparison. Based on the different merits of the methods, we discuss possibilities to improve them and show how they can be effectively combined

Automatic summarisation: 25 years On

This is an accepted manuscript of an article published by Cambridge University Press (CUP) in Natural Language Engineering on 19/09/2019, available online: https://doi.org/10.1017/S1351324919000524 The accepted version of the publication may differ from the final published version.Automatic text summarisation is a topic that has been receiving attention from the research community from the early days of computational linguistics, but it really took off around 25 years ago. This article presents the main developments from the last 25 years. It starts by defining what a summary is and how its definition changed over time as a result of the interest in processing new types of documents. The article continues with a brief history of the field and highlights the main challenges posed by the evaluation of summaries. The article finishes with some thoughts about the future of the field.Published onlin