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Correlation of Donor-Derived Cell-Free DNA with Histology and Molecular Diagnoses of Kidney Transplant Biopsies

I. Moinuddin1, D. Kumar1, P. Halloran2, L. Kamal1, A. King1, P. Kimball1, M. Levy1, C. Bhati1, D. Massey1, G. Gupta1

1VCU Medical Center, Richmond, VA, 2Alberta Transplant Genomics Applied Centre, Edmonton, AB, Canada

Meeting: 2019 American Transplant Congress

Abstract number: 470

Keywords: Biopsy, Kidney transplantation, Non-invasive diagnosis, Rejection

Session Information

Session Name: Concurrent Session: Biomarkers, Immune Monitoring and Outcomes IV

Session Type: Concurrent Session

Date: Tuesday, June 4, 2019

Session Time: 2:30pm-4:00pm

 Presentation Time: 3:18pm-3:30pm

Location: Room 306

*Purpose: Circulating donor-derived cell free DNA (cfDNA; Allosure, CareDx, USA), a non-invasive test that could detect rejection in kidney allografts was validated using histologic diagnoses(HDx). The interpretation of these findings could be difficult as the inter and intra-observer agreement with regards to histologic diagnoses of rejection has been no higher than 60% in published studies. The Molecular microscope (MMDx, Edmonton, CA) might be more accurate than histology. In this prospective study, we compared the detection of rejection from cfDNA to both histology and MMDx reads.

*Methods: 50 indication kidney transplant biopsies were analyzed using HDx and MMDx. cfDNA was measured prior to biopsy. Gold standard diagnosis was based upon a clinical consensus(CDx) by 5 transplant nephrologists after assessing all clinical factors and results. Sensitivity and specificity were calculated using cfDNA cut-offs of <0.21% to rule-out rejection and >1% to rule-in rejection. Spearman’s correlation between cf-DNA and MMDx was calculated.

*Results: Based upon CDx, 17 (34%) had antibody-mediated rejection [AbMR; median cfDNA=1.2 (range: 0.23-6.9)], 3 (6%) had mixed rejection (median cfDNA=0.67 (range: 0.23-1.3)], 2 (4%) had T-cell mediated rejection [TCMR; median cfDNA=1.7 (range:1.2-2.2)], 29 (58%) had acute kidney injury (AKI; tubular injury, median cfDNA=0.23, range=<0.19-2.2)] and 1(2%) had BKV nephropathy (cfDNA=1.6). 7 cases (14%) had discrepant rejection diagnoses between MMDx and HDx. MMDx had a 100% agreement with CDx, compared with HDx (sensitivity: 86%; specificity: 93%). cfDNA>1% had a higher sensitivity and specificity for prediction of rejection when compared with MMDx than with histology. cfDNA<0.21% had a negative predictive value (NPV) of 93% to rule out rejection when compared to either HDx or MMDx. cfDNA scores showed a continuous positive correlation with histologic microvascular inflammation (G+PTC) scores (ρ=0.48; p<0.001), MMDx rejection score (ρ=0.64; p<0.0001), ABMR score (ρ=0.62; p<0.0001) and global disturbance score (ρ=0.54; p<0.0001). No such correlation was seen with GFR at biopsy or change in GFR from baseline.

*Conclusions: In this first report, we find that cfDNA>1% was better correlated with the Molecular microscope than it was with histology with excellent specificity for the prediction of rejection but poor sensitivity. cfDNA can be used as a screening test to rule out rejection (NPV~93% for cfDNA<0.21%) but cannot replace kidney biopsy to determine the type of rejection.

Sensitivity and specificity of various diagnostic modalities when compared to CDx
Modality Sensitivity (%) Specificity(%)
cf-DNA>1% vs HDx 48 86
cf-DNA>1% vs CDx/MMDx 59 93
cf-DNA<0.21% vs CDx/MMDx 95 50
Decline in GFR vs CDx 59 46
DSA vs CDx 68 64
DSA+cf-DNA>1% vs CDx 32 96
DSA+Decline in GFR vs CDx 41 86
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To cite this abstract in AMA style:

Moinuddin I, Kumar D, Halloran P, Kamal L, King A, Kimball P, Levy M, Bhati C, Massey D, Gupta G. Correlation of Donor-Derived Cell-Free DNA with Histology and Molecular Diagnoses of Kidney Transplant Biopsies [abstract]. Am J Transplant. 2019; 19 (suppl 3). https://atcmeetingabstracts.com/abstract/correlation-of-donor-derived-cell-free-dna-with-histology-and-molecular-diagnoses-of-kidney-transplant-biopsies/. Accessed May 18, 2025.

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