The validity of pathology codes for biopsy-confirmed kidney disease in the Danish National Patobank

Marie Møller; Iain Bressendorff; Rikke Borg; Hans Dieperink; Jon W Gregersen; Helle Hansen; Kristine Hommel; Mads Hornum; Per Ivarsen; Karina H Jensen; Morten B Jørgensen; Tilde Kristensen; Dorrit Krustrup; Frank H Mose; Peter Rossing; Kjeld E Otte; Frederik Persson; Kristine D Schandorff; Ditte Hansen

doi:10.1093/ckj/sfae203

The validity of pathology codes for biopsy-confirmed kidney disease in the Danish National Patobank

Marie Møller^*
, Iain Bressendorff
, Rikke Borg
, Hans Dieperink
, Jon W Gregersen
, Helle Hansen
, Kristine Hommel
, Mads Hornum
, Per Ivarsen
, Karina H Jensen
, Morten B Jørgensen
, Tilde Kristensen
, Dorrit Krustrup
, Frank H Mose
, Peter Rossing
, Kjeld E Otte
, Frederik Persson
, Kristine D Schandorff
, Ditte Hansen

^*Corresponding author for this work

Research output: Contribution to journal › Article › Research › peer-review

Abstract

BACKGROUND: This study validates the application of Systematized Nomenclature of Medicine second edition (SNOMED II) codes used to describe medical kidney biopsies in Denmark in encoded form, aiming to support robust epidemiological research on the causes, treatments and prognosis of kidney diseases.

METHODS: Kidney biopsy reports from 1 January 1998 to 31 December 2018 were randomly extracted from the Danish National Patobank, using SNOMED codes. A 5% sample was selected, and nephrologists assessed the corresponding medical records, assigning each case the applied clinical diagnoses. Sensitivity, specificity, positive predictive values (PPV), negative predictive values and Cohen's kappa coefficient for the retrieved SNOMED codes were calculated.

RESULTS: A total of 613 kidney biopsies were included. The primary clinical disease groups were glomerular disease (n = 368), tubulointerstitial disease (n = 67), renal vascular disease (n = 51), diabetic nephropathy (n = 51) and various renal disorders (n = 40). Several SNOMED codes were used to describe each clinical disease group and PPV for the combined SNOMED codes were high for glomerular disease (94%), diabetic nephropathy (85%) and systemic diseases affecting the kidney (96%). Conversely, tubulointerstitial disease (62%), renal vascular disease (60%) and other renal disorders (17%) showed lower PPV.

CONCLUSIONS: SNOMED codes have a high PPV for glomerular diseases, diabetic nephropathy and systemic diseases affecting the kidney, in which they could be applied for future epidemiological research.

Original language	English
Article number	fae203
Number of pages	10
Journal	Clinical Kidney Journal
Volume	17
Issue number	8
DOIs	https://doi.org/10.1093/ckj/sfae203
Publication status	Published - Aug 2024

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Møller, M., Bressendorff, I., Borg, R., Dieperink, H., Gregersen, J. W., Hansen, H., Hommel, K., Hornum, M., Ivarsen, P., Jensen, K. H., Jørgensen, M. B., Kristensen, T., Krustrup, D., Mose, F. H., Rossing, P., Otte, K. E., Persson, F., Schandorff, K. D., & Hansen, D. (2024). The validity of pathology codes for biopsy-confirmed kidney disease in the Danish National Patobank. Clinical Kidney Journal, 17(8), Article fae203. https://doi.org/10.1093/ckj/sfae203

@article{2867e3b3ad774a388335b2af2e9e8e09,

title = "The validity of pathology codes for biopsy-confirmed kidney disease in the Danish National Patobank",

abstract = "BACKGROUND: This study validates the application of Systematized Nomenclature of Medicine second edition (SNOMED II) codes used to describe medical kidney biopsies in Denmark in encoded form, aiming to support robust epidemiological research on the causes, treatments and prognosis of kidney diseases.METHODS: Kidney biopsy reports from 1 January 1998 to 31 December 2018 were randomly extracted from the Danish National Patobank, using SNOMED codes. A 5\% sample was selected, and nephrologists assessed the corresponding medical records, assigning each case the applied clinical diagnoses. Sensitivity, specificity, positive predictive values (PPV), negative predictive values and Cohen's kappa coefficient for the retrieved SNOMED codes were calculated.RESULTS: A total of 613 kidney biopsies were included. The primary clinical disease groups were glomerular disease (n = 368), tubulointerstitial disease (n = 67), renal vascular disease (n = 51), diabetic nephropathy (n = 51) and various renal disorders (n = 40). Several SNOMED codes were used to describe each clinical disease group and PPV for the combined SNOMED codes were high for glomerular disease (94\%), diabetic nephropathy (85\%) and systemic diseases affecting the kidney (96\%). Conversely, tubulointerstitial disease (62\%), renal vascular disease (60\%) and other renal disorders (17\%) showed lower PPV.CONCLUSIONS: SNOMED codes have a high PPV for glomerular diseases, diabetic nephropathy and systemic diseases affecting the kidney, in which they could be applied for future epidemiological research.",

author = "Marie M{\o}ller and Iain Bressendorff and Rikke Borg and Hans Dieperink and Gregersen, \{Jon W\} and Helle Hansen and Kristine Hommel and Mads Hornum and Per Ivarsen and Jensen, \{Karina H\} and J{\o}rgensen, \{Morten B\} and Tilde Kristensen and Dorrit Krustrup and Mose, \{Frank H\} and Peter Rossing and Otte, \{Kjeld E\} and Frederik Persson and Schandorff, \{Kristine D\} and Ditte Hansen",

note = "{\textcopyright} The Author(s) 2024. Published by Oxford University Press on behalf of the ERA.",

year = "2024",

month = aug,

doi = "10.1093/ckj/sfae203",

language = "English",

volume = "17",

journal = "Clinical Kidney Journal",

issn = "2048-8505",

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Møller, M, Bressendorff, I, Borg, R, Dieperink, H, Gregersen, JW, Hansen, H, Hommel, K, Hornum, M, Ivarsen, P, Jensen, KH, Jørgensen, MB, Kristensen, T, Krustrup, D, Mose, FH, Rossing, P, Otte, KE, Persson, F, Schandorff, KD & Hansen, D 2024, 'The validity of pathology codes for biopsy-confirmed kidney disease in the Danish National Patobank', Clinical Kidney Journal, vol. 17, no. 8, fae203. https://doi.org/10.1093/ckj/sfae203

TY - JOUR

T1 - The validity of pathology codes for biopsy-confirmed kidney disease in the Danish National Patobank

AU - Møller, Marie

AU - Bressendorff, Iain

AU - Borg, Rikke

AU - Dieperink, Hans

AU - Gregersen, Jon W

AU - Hansen, Helle

AU - Hommel, Kristine

AU - Hornum, Mads

AU - Ivarsen, Per

AU - Jensen, Karina H

AU - Jørgensen, Morten B

AU - Kristensen, Tilde

AU - Krustrup, Dorrit

AU - Mose, Frank H

AU - Rossing, Peter

AU - Otte, Kjeld E

AU - Persson, Frederik

AU - Schandorff, Kristine D

AU - Hansen, Ditte

PY - 2024/8

Y1 - 2024/8

N2 - BACKGROUND: This study validates the application of Systematized Nomenclature of Medicine second edition (SNOMED II) codes used to describe medical kidney biopsies in Denmark in encoded form, aiming to support robust epidemiological research on the causes, treatments and prognosis of kidney diseases.METHODS: Kidney biopsy reports from 1 January 1998 to 31 December 2018 were randomly extracted from the Danish National Patobank, using SNOMED codes. A 5% sample was selected, and nephrologists assessed the corresponding medical records, assigning each case the applied clinical diagnoses. Sensitivity, specificity, positive predictive values (PPV), negative predictive values and Cohen's kappa coefficient for the retrieved SNOMED codes were calculated.RESULTS: A total of 613 kidney biopsies were included. The primary clinical disease groups were glomerular disease (n = 368), tubulointerstitial disease (n = 67), renal vascular disease (n = 51), diabetic nephropathy (n = 51) and various renal disorders (n = 40). Several SNOMED codes were used to describe each clinical disease group and PPV for the combined SNOMED codes were high for glomerular disease (94%), diabetic nephropathy (85%) and systemic diseases affecting the kidney (96%). Conversely, tubulointerstitial disease (62%), renal vascular disease (60%) and other renal disorders (17%) showed lower PPV.CONCLUSIONS: SNOMED codes have a high PPV for glomerular diseases, diabetic nephropathy and systemic diseases affecting the kidney, in which they could be applied for future epidemiological research.

AB - BACKGROUND: This study validates the application of Systematized Nomenclature of Medicine second edition (SNOMED II) codes used to describe medical kidney biopsies in Denmark in encoded form, aiming to support robust epidemiological research on the causes, treatments and prognosis of kidney diseases.METHODS: Kidney biopsy reports from 1 January 1998 to 31 December 2018 were randomly extracted from the Danish National Patobank, using SNOMED codes. A 5% sample was selected, and nephrologists assessed the corresponding medical records, assigning each case the applied clinical diagnoses. Sensitivity, specificity, positive predictive values (PPV), negative predictive values and Cohen's kappa coefficient for the retrieved SNOMED codes were calculated.RESULTS: A total of 613 kidney biopsies were included. The primary clinical disease groups were glomerular disease (n = 368), tubulointerstitial disease (n = 67), renal vascular disease (n = 51), diabetic nephropathy (n = 51) and various renal disorders (n = 40). Several SNOMED codes were used to describe each clinical disease group and PPV for the combined SNOMED codes were high for glomerular disease (94%), diabetic nephropathy (85%) and systemic diseases affecting the kidney (96%). Conversely, tubulointerstitial disease (62%), renal vascular disease (60%) and other renal disorders (17%) showed lower PPV.CONCLUSIONS: SNOMED codes have a high PPV for glomerular diseases, diabetic nephropathy and systemic diseases affecting the kidney, in which they could be applied for future epidemiological research.

U2 - 10.1093/ckj/sfae203

DO - 10.1093/ckj/sfae203

M3 - Article

C2 - 39131077

SN - 2048-8505

VL - 17

JO - Clinical Kidney Journal

JF - Clinical Kidney Journal

IS - 8

M1 - fae203

ER -

The validity of pathology codes for biopsy-confirmed kidney disease in the Danish National Patobank

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