Literature DB >> 35308976

Towards more patient friendly clinical notes through language models and ontologies.

Francesco Moramarco1, Damir Juric1, Aleksandar Savkov1, Jack Flann1, Maria Lehl1, Kristian Boda1, Tessa Grafen1, Vitalii Zhelezniak1, Sunir Gohil1, Alex Papadopoulos Korfiatis1, Nils Hammerla1.   

Abstract

Clinical notes are an efficient way to record patient information but are notoriously hard to decipher for non-experts. Automatically simplifying medical text can empower patients with valuable information about their health, while saving clinicians time. We present a novel approach to automated simplification of medical text based on word frequencies and language modelling, grounded on medical ontologies enriched with layman terms. We release a new dataset of pairs of publicly available medical sentences and a version of them simplified by clinicians. Also, we define a novel text simplification metric and evaluation framework, which we use to conduct a large-scale human evaluation of our method against the state of the art. Our method based on a language model trained on medical forum data generates simpler sentences while preserving both grammar and the original meaning, surpassing the current state of the art. ©2021 AMIA - All rights reserved.

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Year:  2022        PMID: 35308976      PMCID: PMC8861686     

Source DB:  PubMed          Journal:  AMIA Annu Symp Proc        ISSN: 1559-4076


  8 in total

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Authors:  Qing T Zeng; Tony Tse
Journal:  J Am Med Inform Assoc       Date:  2005-10-12       Impact factor: 4.497

2.  2010 i2b2/VA challenge on concepts, assertions, and relations in clinical text.

Authors:  Özlem Uzuner; Brett R South; Shuying Shen; Scott L DuVall
Journal:  J Am Med Inform Assoc       Date:  2011-06-16       Impact factor: 4.497

3.  A classification of errors in lay comprehension of medical documents.

Authors:  Alla Keselman; Catherine Arnott Smith
Journal:  J Biomed Inform       Date:  2012-08-20       Impact factor: 6.317

4.  Amazon's Mechanical Turk: A New Source of Inexpensive, Yet High-Quality, Data?

Authors:  Michael Buhrmester; Tracy Kwang; Samuel D Gosling
Journal:  Perspect Psychol Sci       Date:  2011-02-03

5.  Plain-language medical vocabulary for precision diagnosis.

Authors:  Nicole A Vasilevsky; Erin D Foster; Mark E Engelstad; Leigh Carmody; Matt Might; Chip Chambers; Hugh J S Dawkins; Janine Lewis; Maria G Della Rocca; Michelle Snyder; Cornelius F Boerkoel; Ana Rath; Sharon F Terry; Alastair Kent; Beverly Searle; Gareth Baynam; Erik Jones; Pam Gavin; Michael Bamshad; Jessica Chong; Tudor Groza; David Adams; Adam C Resnick; Allison P Heath; Chris Mungall; Ingrid A Holm; Kayli Rageth; Catherine A Brownstein; Kent Shefchek; Julie A McMurry; Peter N Robinson; Sebastian Köhler; Melissa A Haendel
Journal:  Nat Genet       Date:  2018-04       Impact factor: 38.330

6.  Entity linking for biomedical literature.

Authors:  Jin G Zheng; Daniel Howsmon; Boliang Zhang; Juergen Hahn; Deborah McGuinness; James Hendler; Heng Ji
Journal:  BMC Med Inform Decis Mak       Date:  2015-05-20       Impact factor: 2.796

7.  Expansion of the Human Phenotype Ontology (HPO) knowledge base and resources.

Authors:  Sebastian Köhler; Leigh Carmody; Nicole Vasilevsky; Julius O B Jacobsen; Daniel Danis; Jean-Philippe Gourdine; Michael Gargano; Nomi L Harris; Nicolas Matentzoglu; Julie A McMurry; David Osumi-Sutherland; Valentina Cipriani; James P Balhoff; Tom Conlin; Hannah Blau; Gareth Baynam; Richard Palmer; Dylan Gratian; Hugh Dawkins; Michael Segal; Anna C Jansen; Ahmed Muaz; Willie H Chang; Jenna Bergerson; Stanley J F Laulederkind; Zafer Yüksel; Sergi Beltran; Alexandra F Freeman; Panagiotis I Sergouniotis; Daniel Durkin; Andrea L Storm; Marc Hanauer; Michael Brudno; Susan M Bello; Murat Sincan; Kayli Rageth; Matthew T Wheeler; Renske Oegema; Halima Lourghi; Maria G Della Rocca; Rachel Thompson; Francisco Castellanos; James Priest; Charlotte Cunningham-Rundles; Ayushi Hegde; Ruth C Lovering; Catherine Hajek; Annie Olry; Luigi Notarangelo; Morgan Similuk; Xingmin A Zhang; David Gómez-Andrés; Hanns Lochmüller; Hélène Dollfus; Sergio Rosenzweig; Shruti Marwaha; Ana Rath; Kathleen Sullivan; Cynthia Smith; Joshua D Milner; Dorothée Leroux; Cornelius F Boerkoel; Amy Klion; Melody C Carter; Tudor Groza; Damian Smedley; Melissa A Haendel; Chris Mungall; Peter N Robinson
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

8.  MIMIC-III, a freely accessible critical care database.

Authors:  Alistair E W Johnson; Tom J Pollard; Lu Shen; Li-Wei H Lehman; Mengling Feng; Mohammad Ghassemi; Benjamin Moody; Peter Szolovits; Leo Anthony Celi; Roger G Mark
Journal:  Sci Data       Date:  2016-05-24       Impact factor: 6.444

  8 in total

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