Your browser doesn't support javascript.
loading
Feasibility and Potential of Transcriptomic Analysis Using the NanoString nCounter Technology to Aid the Classification of Rejection in Kidney Transplant Biopsies.
Varol, Hilal; Ernst, Angela; Cristoferi, Iacopo; Arns, Wolfgang; Baan, Carla C; van Baardwijk, Myrthe; van den Bosch, Thierry; Eckhoff, Jennifer; Harth, Ana; Hesselink, Dennis A; van Kemenade, Folkert J; de Koning, Willem; Kurschat, Christine; Minnee, Robert C; Mustafa, Dana A; Reinders, Marlies E J; Shahzad-Arshad, Shazia P; Snijders, Malou L H; Stippel, Dirk; Stubbs, Andrew P; von der Thüsen, Jan; Wirths, Katharina; Becker, Jan U; Clahsen-van Groningen, Marian C.
Afiliación
  • Varol H; Department of Pathology, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Ernst A; Erasmus MC Transplant Institute, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Cristoferi I; Institute of Medical Statistics and Computational Biology, University Hospital of Cologne, Cologne, Germany.
  • Arns W; Erasmus MC Transplant Institute, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Baan CC; Department of Pathology, Clinical Bioinformatics Unit, Erasmus MC, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • van Baardwijk M; Department of Surgery, Division of HPB & Transplant Surgery, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • van den Bosch T; Cologne Merheim Medical Center, Cologne General Hospital, Cologne, Germany.
  • Eckhoff J; Erasmus MC Transplant Institute, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Harth A; Department of Internal Medicine, Division of Nephrology and Transplantation, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Hesselink DA; Erasmus MC Transplant Institute, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • van Kemenade FJ; Department of Pathology, Clinical Bioinformatics Unit, Erasmus MC, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • de Koning W; Department of Surgery, Division of HPB & Transplant Surgery, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Kurschat C; Department of Pathology, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Minnee RC; Department of General Visceral Cancer and Transplant Surgery Transplant Center Cologne, University of Cologne Faculty of Medicine and University Hospital of Cologne, Cologne, Germany.
  • Mustafa DA; Cologne Merheim Medical Center, Cologne General Hospital, Cologne, Germany.
  • Reinders MEJ; Erasmus MC Transplant Institute, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Shahzad-Arshad SP; Department of Internal Medicine, Division of Nephrology and Transplantation, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Snijders MLH; Department of Pathology, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Stippel D; Department of Pathology, Clinical Bioinformatics Unit, Erasmus MC, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Stubbs AP; Department of Pathology, Tumor Immuno-Pathology Laboratory, Erasmus University Medical Center, Rotterdam, The Netherlands.
  • von der Thüsen J; Department II of Internal Medicine and Center for Molecular Medicine Cologne, University of Cologne, Faculty of Medicine and University Hospital Cologne, Cologne, Germany.
  • Wirths K; Erasmus MC Transplant Institute, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Becker JU; Department of Surgery, Division of HPB & Transplant Surgery, University Medical Center Rotterdam, Rotterdam, The Netherlands.
  • Clahsen-van Groningen MC; Department of Pathology, Tumor Immuno-Pathology Laboratory, Erasmus University Medical Center, Rotterdam, The Netherlands.
Transplantation ; 107(4): 903-912, 2023 04 01.
Article en En | MEDLINE | ID: mdl-36413151
BACKGROUND: Transcriptome analysis could be an additional diagnostic parameter in diagnosing kidney transplant (KTx) rejection. Here, we assessed feasibility and potential of NanoString nCounter analysis of KTx biopsies to aid the classification of rejection in clinical practice using both the Banff-Human Organ Transplant (B-HOT) panel and a customized antibody-mediated rejection (AMR)-specific NanoString nCounter Elements (Elements) panel. Additionally, we explored the potential for the classification of KTx rejection building and testing a classifier within our dataset. METHODS: Ninety-six formalin-fixed paraffin-embedded KTx biopsies were retrieved from the archives of the ErasmusMC Rotterdam and the University Hospital Cologne. Biopsies with AMR, borderline or T cell-mediated rejections (BLorTCMR), and no rejection were compared using the B-HOT and Elements panels. RESULTS: High correlation between gene expression levels was found when comparing the 2 chemistries pairwise (r = 0.76-0.88). Differential gene expression (false discovery rate; P < 0.05) was identified in biopsies diagnosed with AMR (B-HOT: 294; Elements: 76) and BLorTCMR (B-HOT: 353; Elements: 57) compared with no rejection. Using the most predictive genes from the B-HOT analysis and the Element analysis, 2 least absolute shrinkage and selection operators-based regression models to classify biopsies as AMR versus no AMR (BLorTCMR or no rejection) were developed achieving an receiver-operating-characteristic curve of 0.994 and 0.894, sensitivity of 0.821 and 0.480, and specificity of 1.00 and 0.979, respectively, during cross-validation. CONCLUSIONS: Transcriptomic analysis is feasible on KTx biopsies previously used for diagnostic purposes. The B-HOT panel has the potential to differentiate AMR from BLorTCMR or no rejection and could prove valuable in aiding kidney transplant rejection classification.
Asunto(s)

Texto completo: 1 Bases de datos: MEDLINE Asunto principal: Trasplante de Riñón Tipo de estudio: Prognostic_studies Límite: Humans Idioma: En Revista: Transplantation Año: 2023 Tipo del documento: Article País de afiliación: Países Bajos

Texto completo: 1 Bases de datos: MEDLINE Asunto principal: Trasplante de Riñón Tipo de estudio: Prognostic_studies Límite: Humans Idioma: En Revista: Transplantation Año: 2023 Tipo del documento: Article País de afiliación: Países Bajos