Related papers: PubTree: A Hierarchical Search Tool for the MEDLIN…
The aim of the study was to assess and compare established search systems and approaches by using the search goal of identifying the first (as in oldest) nursing-related document, with reference to the first Swedish-affiliated document, in…
Learning semantically meaningful representations from scientific documents can facilitate academic literature search and improve performance of recommendation systems. Pre-trained language models have been shown to learn rich textual…
PubMed is the biggest and most used bibliographic database worldwide, hosting more than 26M biomedical publications. One of its useful features is the "similar articles" section, allowing the end-user to find scientific articles linked to…
This article presents our steps to integrate complex and partly unstructured medical data into a clinical research database with subsequent decision support. Our main application is an integrated faceted search tool, accompanied by the…
As an effective method to boost the performance of Large Language Models (LLMs) on the question answering (QA) task, Retrieval-Augmented Generation (RAG), which queries highly relevant information from external complex documents, has…
Automatically extracting organization names from the affiliation sentences of articles related to biomedicine is of great interest to the pharmaceutical marketing industry, health care funding agencies and public health officials. It will…
Medical entity linking is the task of identifying and standardizing medical concepts referred to in an unstructured text. Most of the existing methods adopt a three-step approach of (1) detecting mentions, (2) generating a list of candidate…
Increasingly, keyword, natural language and NoSQL queries are being used for information retrieval from traditional as well as non-traditional databases such as web, document, image, GIS, legal, and health databases. While their popularity…
We study the task of automatically finding evidence relevant to hypotheses in biomedical papers. Finding relevant evidence is an important step when researchers investigate scientific hypotheses. We introduce EvidenceBench to measure models…
We introduce WordScape, a novel pipeline for the creation of cross-disciplinary, multilingual corpora comprising millions of pages with annotations for document layout detection. Relating visual and textual items on document pages has…
Despite the advancements in search engine features, ranking methods, technologies, and the availability of programmable APIs, current-day open-access digital libraries still rely on crawl-based approaches for acquiring their underlying…
PubMed is an essential resource for the medical domain, but useful concepts are either difficult to extract or are ambiguated, which has significantly hindered knowledge discovery. To address this issue, we constructed a PubMed knowledge…
Constructing taxonomies from citation graphs is essential for organizing scientific knowledge, facilitating literature reviews, and identifying emerging research trends. However, manual taxonomy construction is labor-intensive,…
Scientific literature review generation aims to extract and organize important information from an abundant collection of reference papers and produces corresponding reviews while lacking a clear and logical hierarchy. We observe that a…
Retrieval-augmented generation (RAG) enhances large language models with external knowledge, and tree-based RAG organizes documents into hierarchical indexes to support queries at multiple granularities. However, existing Tree-RAG methods…
With the rising quantity of textual data available in electronic format, the need to organize it become a highly challenging task. In the present paper, we explore a document organization framework that exploits an intelligent hierarchical…
The current communication presents a simple exercise with the aim of solving a singular problem: the retrieval of extremely large amounts of items in the Web of Science interface. As it is known, Web of Science interface allows a user to…
We are presenting a set of multilingual text analysis tools that can help analysts in any field to explore large document collections quickly in order to determine whether the documents contain information of interest, and to find the…
Papers, patents, and clinical trials are essential scientific resources in biomedicine, crucial for knowledge sharing and dissemination. However, these documents are often stored in disparate databases with varying management standards and…
Generative search engines and deep research LLM agents promise trustworthy, source-grounded synthesis, yet users regularly encounter overconfidence, weak sourcing, and confusing citation practices. We introduce DeepTRACE, a novel…