Related papers: Demonstrating Narrative Pattern Discovery from Bio…
Providing effective access paths to content is a key task in digital libraries. Oftentimes, such access paths are realized through advanced query languages, which, on the one hand, users may find challenging to learn or use, and on the…
Keyword-based searches are today's standard in digital libraries. Yet, complex retrieval scenarios like in scientific knowledge bases, need more sophisticated access paths. Although each document somewhat contributes to a domain's body of…
Biomedical research yields a wealth of information, much of which is only accessible through the literature. Consequently, literature search is an essential tool for building on prior knowledge in clinical and biomedical research. Although…
Here we study the semantic search and retrieval problem in biomedical digital libraries. First, we introduce MedGraph, a knowledge graph embedding-based method that provides semantic relevance retrieval and ranking for the biomedical…
Keeping track of the ever-increasing body of scientific literature is an escalating challenge. We present PubTree a hierarchical search tool that efficiently searches the PubMed/MEDLINE dataset based upon a decision tree constructed using…
We present a novel system that automatically extracts and generates informative and descriptive sentences from the biomedical corpus and facilitates the efficient search for relational knowledge. Unlike previous search engines or…
PubTator 3.0 (https://www.ncbi.nlm.nih.gov/research/pubtator3/) is a biomedical literature resource using state-of-the-art AI techniques to offer semantic and relation searches for key concepts like proteins, genetic variants, diseases, and…
PubMed's current search interface makes it tedious to systematically search for medical and research literature on drugs that could potentially be used to treat a given pathology, including patients with genetically altered tumors. This is…
The Covid-19 pandemic has caused a spur in the medical research literature. With new research advances in understanding the virus, there is a need for robust text mining tools which can process, extract and present answers from the…
A new clinical literature search engine, called CupQ, is presented. It aims to help clinicians stay updated with medical knowledge. Although PubMed is currently one of the most widely used digital libraries for biomedical information, it…
PubMed is a freely accessible system for searching the biomedical literature, with approximately 2.5 million users worldwide on an average workday. We have recently developed PubMed Labs (www.pubmed.gov/labs), an experimental platform for…
With an exponentially growing number of scientific papers published each year, advanced tools for exploring and discovering publications of interest are becoming indispensable. To empower users beyond a simple keyword search provided e.g.…
We present a system that constructs and maintains an up-to-date co-occurrence network of medical concepts based on continuously mining the latest biomedical literature. Users can explore this network visually via a concise online interface…
Literature analysis is a key step in obtaining background information in biomedical research. However, it is difficult for researchers to obtain knowledge of their interests in an efficient manner because of the massive amount of the…
We present a system that allows life-science researchers to search a linguistically annotated corpus of scientific texts using patterns over dependency graphs, as well as using patterns over token sequences and a powerful variant of boolean…
Data exploration is an important step of every data science and machine learning project, including those involving textual data. We provide a novel language tool, in the form of a publicly available Python library for extracting patterns…
Knowledge bases allow effective access paths in digital libraries. Here users can specify their information need as graph patterns for precise searches and structured overviews (by allowing variables in queries). But especially when…
Designing keyword-based access paths is a common practice in digital libraries. They are easy to use and accepted by users and come with moderate costs for content providers. However, users usually have to break down the search into pieces…
This paper aims to provide a radical rundown on Conversation Search (ConvSearch), an approach to enhance the information retrieval method where users engage in a dialogue for the information-seeking tasks. In this survey, we predominantly…
Digital libraries that maintain extensive textual collections may want to further enrich their content for certain downstream applications, e.g., building knowledge graphs, semantic enrichment of documents, or implementing novel access…