113 citations · 134 across the 7 of their papers we have counts for
7 papers
MapperGPT: Large Language Models for Linking and Mapping Entities
Nicolas Matentzoglu, J. Harry Caufield, Harshad B. Hegde +6
Aligning terminological resources, including ontologies, controlled vocabularies, taxonomies, and value sets is a critical part of data integration in many domains such as healthca…
Gene Set Summarization using Large Language Models
Marcin P. Joachimiak, J. Harry Caufield, Nomi L. Harris +2
Molecular biologists frequently interpret gene lists derived from high-throughput experiments and computational analysis. This is typically done as a statistical enrichment analysi…
Structured prompt interrogation and recursive extraction of semantics (SPIRES): A method for populating knowledge bases using zero-shot learning
J. Harry Caufield, Harshad Hegde, Vincent Emonet +9
Creating knowledge bases and ontologies is a time consuming task that relies on a manual curation. AI/NLP approaches can assist expert curators in populating these knowledge bases,…
KG-Hub -- Building and Exchanging Biological Knowledge Graphs
J Harry Caufield, Tim Putman, Kevin Schaper +23
Knowledge graphs (KGs) are a powerful approach for integrating heterogeneous data and making inferences in biology and many other domains, but a coherent solution for constructing,…
Clinical Named Entity Recognition using Contextualized Token Representations
Yichao Zhou, Chelsea Ju, J. Harry Caufield +6
The clinical named entity recognition (CNER) task seeks to locate and classify clinical terminologies into predefined categories, such as diagnostic procedure, disease disorder, se…
CREATe: Clinical Report Extraction and Annotation Technology
Yichao Zhou, Wei-Ting Chen, Bowen Zhang +6
Clinical case reports are written descriptions of the unique aspects of a particular clinical case, playing an essential role in sharing clinical experiences about atypical disease…
Clinical Temporal Relation Extraction with Probabilistic Soft Logic Regularization and Global Inference
Yichao Zhou, Yu Yan, Rujun Han +5
There has been a steady need in the medical community to precisely extract the temporal relations between clinical events. In particular, temporal information can facilitate a vari…