Natural Language Processing to extract SNOMED-CT codes from pathological reports.

Journal: Pathologica
Published Date: Dec 1, 2023

Abstract

OBJECTIVE: The use of standardized structured reports (SSR) and suitable terminologies like SNOMED-CT can enhance data retrieval and analysis, fostering large-scale studies and collaboration. However, the still large prevalence of narrative reports in our laboratories warrants alternative and automated labeling approaches. In this project, natural language processing (NLP) methods were used to associate SNOMED-CT codes to structured and unstructured reports from an Italian Digital Pathology Department.

Authors

  • Giorgio Cazzaniga
    Department of Medicine and Surgery, Pathology, Fondazione IRCCS San Gerardo dei Tintori, Università di Milano-Bicocca, Monza, Italy. giorgio9cazzaniga@gmail.com.
  • Albino Eccher
    Department of Pathology and Diagnostics, University and Hospital Trust of Verona, P.le Stefani n. 1, 37126, Verona, Italy. albino.eccher@aovr.veneto.it.
  • Enrico Munari
    Pathology Unit, Department of Molecular and Translational Medicine, Spedali Civili-University of Brescia, Brescia, Italy.
  • Stefano Marletta
    Department of Diagnostics and Public Health, University and Hospital Trust of Verona, Verona, Italy.
  • Emanuela Bonoldi
    Unit of Surgical Pathology and Cytogenetics, ASST Grande Ospedale Metropolitano Niguarda, Milan, Italy.
  • Vincenzo Della Mea
    Department of Mathematics, Computer Science and Physics, University of Udine Italy.
  • Moris Cadei
    Pathology Unit, ASST Spedali Civili di Brescia, Brescia, Italy.
  • Marta Sbaraglia
    Surgical Pathology & Cytopathology Unit, Department of Medicine - DIMED, University of Padua, Padua, Italy.
  • Angela Guerriero
    Surgical Pathology and Cytopathology Unit, Department of Medicine-DIMED, University of Padua School of Medicine, Padua, Italy.
  • Angelo Paolo Dei Tos
    Surgical Pathology & Cytopathology Unit, Department of Medicine - DIMED, University of Padua, Padua, Italy.
  • Fabio Pagni
    Department of Medicine and Surgery, ASST Monza, San Gerardo Hospital, University of Milano-Bicocca, Monza, Italy.
  • Vincenzo L'Imperio
    Department of Medicine and Surgery, ASST Monza, San Gerardo Hospital, University of Milano-Bicocca, Monza, Italy.

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