Metadata

Name Chronic Kidney Disease (CKD)
Type Disease or Syndrome
Group Genitourinary
Data Sources
Clinical Terminologies SNOMED-CT
Codelists
Valid Event Data Range 01/03/2020-05/04/2020
Sex Female
Male
Authors Carr E, Bendayan R, Bean D, OGallagher K, Pickles A, Stahl D, Zakeri R, Searle T, Shek A, Kraljevic Z, Teo J, Shah A, Dobson R
Agreement Date 3 May 2020
Version (UUID) 1 (XmYuru73YF4EeRppjSAwsP)

Secondary care

The data (demographics, emergency department letters, discharge summaries, clinical notes, lab results, vital signs) were retrieved and analyzed in near real-time from the structured and unstructured components of the electronic health record (EHR) using a variety of natural language processing (NLP) informatics tools belonging to the CogStack ecosystem, namely MedCAT and MedCATTrainer. The CogStack NLP pipeline captures negation, synonyms, and acronyms for medical SNOMED-CT concepts as well as surrounding linguistic context using deep learning and long short-term memory networks. MedCAT produces unsupervised annotations for all SNOMED-CT concepts under parent terms Clinical Finding, Disorder, Organism, and Event with disambiguation, pre-trained on MIMIC-III. The annotated SNOMED-CT terms are summarised below

SNOMED_ConceptId SNOMED_Term
433144002 Chronic kidney disease stage 3 (disorder)
90688005 Chronic renal failure syndrome (disorder)
709044004 Chronic kidney disease (disorder)

Publications

Carr E, Bendayan R, Bean D, OGallagher K, Pickles A, Stahl D, Zakeri R, Searle T, Shek A, Kraljevic Z, Teo J, Shah A, Dobson R. (2020) Supplementing the National Early Warning Score (NEWS2) for anticipating early deterioration among patients with COVID-19 infection. medRxiv DOI: 10.1101/2020.04.24.20078006