Skip to main content

MeSHx-Notes: Web-System for Clinical Notes

  • Conference paper
  • First Online:
  • 979 Accesses

Part of the book series: Lecture Notes in Computer Science ((LNAI,volume 11326))

Abstract

We present MeSHx-Notes, MeSH eXtended for clinical notes, a multi-language web system based on the Django framework to present selected terms in clinical notes. MeSHx-Notes extends Medical Subject Headings (MeSH) terms with Word Embeddings with similar words. Since MeSH is available in 15 languages, MeSHx-Notes is easily extendable by replacing the MeSH thesaurus with the target language (plus the generation of the corresponding WE for the new language). Our version deals with Portuguese and English.

This is a preview of subscription content, log in via an institution.

Buying options

Chapter
USD   29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD   39.99
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD   54.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Learn about institutional subscriptions

Notes

  1. 1.

    https://www.ncbi.nlm.nih.gov/mesh.

  2. 2.

    https://github.com/nlp-pucrs/meshx-notes.

  3. 3.

    http://grupopln.inf.pucrs.br/meshx.

References

  1. Buntin, M.B., Burke, M.F., Hoaglin, M.C., Blumenthal, D.: The benefits of health information technology: a review of the recent literature shows predominantly positive results. Health Aff. 30(3), 464–471 (2011)

    Article  Google Scholar 

  2. Jensen, P.B., Jensen, L.J., Brunak, S.: Mining electronic health records: towards better research applications and clinical care. Nat. Rev. Genet. 13(6), 395 (2012)

    Article  Google Scholar 

  3. Kovačević, A., Dehghan, A., Filannino, M., Keane, J.A., Nenadic, G.: Combining rules and machine learning for extraction of temporal expressions and events from clinical narratives. J. Am. Med. Inform. Assoc. 20(5), 859–866 (2013)

    Article  Google Scholar 

  4. Mikolov, T., Sutskever, I., Chen, K., Corrado, G.S., Dean, J.: Distributed representations of words and phrases and their compositionality. In: Advances in Neural Information Processing Systems, pp. 3111–3119 (2013)

    Google Scholar 

  5. Reátegui, R., Ratté, S.: Comparison of metamap and ctakes for entity extraction in clinical notes. BMC Med. Inform. Decis. Mak. 18(3), 74 (2018)

    Article  Google Scholar 

  6. dos Santos, H.D.P., Nunes, R.O., Soares, J.E., Vieira, R.: Meshx-notes: web system for clinical notes information extraction. In: AIH Joint Workshop on Artificial Intelligence for Health, p. 1. Stockholm, Sweden, July 2018

    Google Scholar 

  7. dos Santos, H.D.P., Ulbrich, A.H.D.P.S., Woloszyn, V., Vieira, R.: DDC-outlier: preventing medication errors using unsupervised learning. IEEE J. Biomed. Health Inform., 1 (2018). https://doi.org/10.1109/JBHI.2018.2828028

  8. dos Santos, H.D.P., Ulbrich, A.H.D.P.S., Woloszyn, V., Vieira, R.: An initial investigation of Charlson comorbidity index regression based on clinical notes. In: 31st IEEE CBMS International Symposium on Computer-Based Medical Systems (CBMS), pp. 6–11. IEEE, Karlstad, June 2018. https://doi.org/10.1109/CBMS.2018.00009

  9. Savova, G.K., et al.: Mayo clinical text analysis and knowledge extraction system (cTAKES): architecture, component evaluation and applications. J. Am. Med. Inform. Assoc. 17(5), 507–513 (2010)

    Article  Google Scholar 

  10. Trieschnigg, D., Pezik, P., Lee, V., De Jong, F., Kraaij, W., Rebholz-Schuhmann, D.: Mesh up: effective mesh text classification for improved document retrieval. Bioinformatics 25(11), 1412–1418 (2009)

    Article  Google Scholar 

  11. Uzuner, Ö., South, B.R., Shen, S., DuVall, S.L.: 2010 i2b2/VA challenge on concepts, assertions, and relations in clinical text. J. Am. Med. Inform. Assoc. 18(5), 552–556 (2011)

    Article  Google Scholar 

  12. Wang, Y., et al.: Clinical information extraction applications: a literature review. J. Biomed. Inform. 77, 34 – 49 (2018). https://doi.org/10.1016/j.jbi.2017.11.011. http://www.sciencedirect.com/science/article/pii/S1532046417302563

    Article  Google Scholar 

  13. Who, B.P.: Health sciences descriptors: DECS (2017). http://decs.bvsalud.org/I/homepagei.htm. Accessed 30 Sept 2018

Download references

Acknowledgments

This work was partially supported by CAPES (Coordenação de Aperfeiçoamento de Pessoal de Nível Superior) Foundation (Brazil), PUCRS (Pontifical Catholic University of Rio Grande do Sul), and UFRGS (Federal University of Rio Grande do Sul).

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Henrique D. P. dos Santos .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2019 Springer Nature Switzerland AG

About this paper

Check for updates. Verify currency and authenticity via CrossMark

Cite this paper

Nunes, R.O., Soares, J.E., dos Santos, H.D.P., Vieira, R. (2019). MeSHx-Notes: Web-System for Clinical Notes. In: Koch, F., et al. Artificial Intelligence in Health. AIH 2018. Lecture Notes in Computer Science(), vol 11326. Springer, Cham. https://doi.org/10.1007/978-3-030-12738-1_1

Download citation

  • DOI: https://doi.org/10.1007/978-3-030-12738-1_1

  • Published:

  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-030-12737-4

  • Online ISBN: 978-3-030-12738-1

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics