FCCC LOGO Faculty Publications
Egleston BL , Bai T , Bleicher RJ , Taylor SJ , Lutz MH , Vucetic S
Statistical inference for natural language processing algorithms with a demonstration using type 2 diabetes prediction from electronic health record notes
Biometrics. 2020 Jul 22
PMID: 32700317    PMCID: PMC7854976    URL: https://www.ncbi.nlm.nih.gov/pubmed/32700317
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Abstract
The pointwise mutual information statistic (PMI), which measures how often two words occur together in a document corpus, is a cornerstone of recently proposed popular natural language processing algorithms such as word2vec. PMI and word2vec reveal semantic relationships between words and can be helpful in a range of applications such as document indexing, topic analysis, or document categorization. We use probability theory to demonstrate the relationship between PMI and word2vec. We use the theoretical results to demonstrate how the PMI can be modeled and estimated in a simple and straight forward manner. We further describe how one can obtain standard error estimates that account for within-patient clustering that arises from patterns of repeated words within a patient's health record due to a unique health history. We then demonstrate the usefulness of PMI on the problem of predictive identification of disease from free text notes of electronic health records. Specifically, we use our methods to distinguish those with and without type 2 diabetes mellitus in electronic health record free text data using over 400‚ÄČ000 clinical notes from an academic medical¬†center.
Notes
1541-0420 Egleston, Brian L Orcid: 0000-0002-1633-799x Bai, Tian Bleicher, Richard J Taylor, Stanford J Lutz, Michael H Vucetic, Slobodan P30CA006927/CA/NCI NIH HHS/United States R21CA202130/CA/NCI NIH HHS/United States Journal Article United States Biometrics. 2020 Jul 22. doi: 10.1111/biom.13338.