Extracting T Cell Function and Differentiation Characteristics from the Biomedical Literature

The role of many cytokines and transcription factors in the function and development of human T cells has been the subject of extensive research, however much of this work only demonstrates experimental findings for a relatively small portion of the molecular signaling network that enables the plasticity inherent to these cells. We apply recent advancements in methods for weak supervision and transfer learning for natural language models to aid in extracting these individual findings as 283k cell type, cytokine, and transcription factor relations from 64k relevant documents (53k full-text PMC articles and 11k PubMed abstracts). All data, results and source code available at https://github.com/hammerlab/t-cell-relation-extraction.