Related papers: Applying deep learning techniques on medical corpo…
The biomedical field relies heavily on concept linking in various areas such as literature mining, graph alignment, information retrieval, question-answering, data, and knowledge integration. Although large language models (LLMs) have made…
Relationships in scientific data, such as the numerical and spatial distribution relations of features in univariate data, the scalar-value combinations' relations in multivariate data, and the association of volumes in time-varying and…
With the exponential growth of the life science literature, biomedical text mining (BTM) has become an essential technology for accelerating the extraction of insights from publications. Identifying named entities (e.g., diseases, drugs, or…
Objective: We aim to learn potential novel cures for diseases from unstructured text sources. More specifically, we seek to extract drug-disease pairs of potential cures to diseases by a simple reasoning over the structure of spoken text.…
Uncontextualized word embeddings are reliable feature representations of words used to obtain high quality results for various NLP applications. Given the historical success of word embeddings in NLP, we propose a retrospective on some of…
Entity recognition is a critical first step to a number of clinical NLP applications, such as entity linking and relation extraction. We present the first attempt to apply state-of-the-art entity recognition approaches on a newly released…
Repurposing existing drugs to treat new diseases is a cost-effective alternative to de novo drug development, but there are millions of potential drug-disease combinations to be considered with only a small fraction being viable. In silico…
Protein-ligand interactions are one of the fundamental types of molecular interactions in living systems. Ligands are small molecules that interact with protein molecules at specific regions on their surfaces called binding sites. Tasks…
Researchers and practitioners in natural language processing and computational linguistics frequently observe and analyze the real language usage in large-scale corpora. For that purpose, they often employ off-the-shelf pattern-matching…
Objective: Clinical trials are essential for advancing pharmaceutical interventions, but they face a bottleneck in selecting eligible participants. Although leveraging electronic health records (EHR) for recruitment has gained popularity,…
Topic modeling is used for discovering latent semantic structure, usually referred to as topics, in a large collection of documents. The most widely used methods are Latent Dirichlet Allocation and Probabilistic Latent Semantic Analysis.…
The advent of Large Language Models (LLMs) is promising and LLMs have been applied to numerous fields. However, it is not trivial to implement LLMs in the medical field, due to the high standards for precision and accuracy. Currently, the…
In this work, we examine the extent to which embeddings may encode marginalized populations differently, and how this may lead to a perpetuation of biases and worsened performance on clinical tasks. We pretrain deep embedding models (BERT)…
Analyzing the writing styles of authors and articles is a key to supporting various literary analyses such as author attribution and genre detection. Over the years, rich sets of features that include stylometry, bag-of-words, n-grams have…
A fundamental goal of search engines is to identify, given a query, documents that have relevant text. This is intrinsically difficult because the query and the document may use different vocabulary, or the document may contain query words…
Semantic concepts and relations encoded in domain-specific ontologies and other medical semantic resources play a crucial role in deciphering terms in medical queries and documents. The exploitation of these resources for tackling the…
Clinical trials are central to medical progress because they help improve understanding of human health and the healthcare system. They play a key role in discovering new ways to detect, prevent, or treat diseases, and it is essential that…
The COVID-19 pandemic has put immense pressure on health systems which are further strained due to the misinformation surrounding it. Under such a situation, providing the right information at the right time is crucial. There is a growing…
The development of state-of-the-art (SOTA) Natural Language Processing (NLP) systems has steadily been establishing new techniques to absorb the statistics of linguistic data. These techniques often trace well-known constructs from…
Dementia is a progressive neurological disorder that profoundly affects the daily lives of older adults, impairing abilities such as verbal communication and cognitive function. Early diagnosis is essential for enhancing both lifespan and…