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Testing

AR. STA. BK. AR. STA. BK. AR. STA. BK. NS. HC. 10. 10. 6. 10. 10. 4. 20. 20. 10. 10. 10. A. B. C. STA. AR. BK. Training set n = 26. Testing set n = 24. Data set n = 70. AR. STA. BK. NS. HC. Probability. NON -AR. NON -AR. NON -AR. Clinical diagnosis.

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Testing

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  1. AR STA BK AR STA BK AR STA BK NS HC 10 10 6 10 10 4 20 20 10 10 10 A B C STA AR BK Training set n = 26 Testing set n = 24 Data set n = 70 AR STA BK NS HC Probability NON -AR NON -AR NON -AR Clinical diagnosis Clinical diagnosis Clinical diagnosis AR AR AR Training 20 50 n = 10 16 10 14 n = n = PAM PAM PAM Predicted as AR Predicted as AR Clustered as AR 19 0 9 0 8 2 Predicted as Non-AR Predicted as NON-AR Clustered as NON-AR 1 50 1 16 2 12 Percent Agreement with clinical diagnosis Percent Agreement with clinical diagnosis 90% 100% 80% 85% 95% 100% Percent Agreement with clinical diagnosis + - + - + - 96% 83% 98.5% Probability Overall P < 10-5 Overall P = 0.002 Testing Overall P < 10-15 Sample ID

  2. URINE PEPTIDOME ANALYSIS AR STA BK NS HC Signal Intensity • THP 982.59 VLNLGPITR • THP 1047.48 SGSVIDQSRV • THP 1211.66 DQSRVLNLGPI • THP 1225.69 SRVLNLGPITR • THP 1324.76 IDQSRVLNLGPI • THP 1423.83 VIDQSRVLNLGPI • THP 1468.82 DQSRVLNLGPITR • THP 1510.87 SVIDQSRVLNLGPI • THP 1567.91 GSVIDQSRVLNLGPI • THP 1581.91 IDQSRVLNLGPITR • THP 1654.91 SGSVIDQSRVLNLGPI • THP 1680.98 VIDQSRVLNLGPITR • THP 1755.96 SGSVIDQSRVLNLGPIT • THP 1768.01 SVIDQSRVLNLGPITR • THP 1912.07 SGSVIDQSRVLNLGPITR • THP 2040.16 SGSVIDQSRVLNLGPITRK 14 15 1 2 3 4 5 6 7 8 9 10 11 12 13 16

  3. AR STA NR HC THP RNA EXPRESSION ANALYSIS 1:4 PBL 5:8 transplant biopsies Signal Intensity 1 2 3 4 5 6 7 8

  4. URINE PEPTIDOME ANALYSIS AR STA BK NS HC Signal Intensity 14 15 1 2 3 4 5 6 7 8 9 10 11 12 13 16 17 18 19 • COL1A1 1235.56 APGDRGEPGPPGP • COL1A1 1251.55 APGDRGEPGPPGP • COL1A1 1322.57 APGDRGEPGPPGPA • COL1A1 1316.59 DAGPVGPPGPPGPPG • COL1A1 1409.65 GPPGPPGPPGPPGPPS • COL1A1 2048.92 NGDDGEAGKPGRPGERGPPGP • COL1A1 2064.91 NGDDGEAGKPGRPGERGPPGP • COL1A1 2192.97 NGDDGEAGKPGRPGERGPPGPQ • COL1A1 2362.12 GKNGDDGEAGKPGRPGERGPPGPQ • COL1A1 1266.58 SPGPDGKTGPPGPA • COL1A1 1709.79 PPGEAGKPGEQGVPGDLG • COL1A1 2017.93 GRPGEVGPPGPPGPAGEKGSPG • COL1A1 2205.99 ADGQPGAKGEPGDAGAKGDAGPPGP • COL1A1 3014.41 ESGREGAPGAEGSPGRDGSPGAKGDRGETGPA • COL2A1 1861.85 SNGNPGPPGPPGPSGKDGPK • COL3A1 1738.76 NDGAPGKNGERGGPGGPGP • COL3A1 2008.93 DGESGRPGRPGERGLPGPPG • COL3A1 2079.92 DAGAPGAPGGKGDAGAPGERGPPG • COL3A1 2743.24 KNGETGPQGPPGPTGPGGDKGDTGPPGPQG

  5. URINE PEPTIDOME ANALYSIS AR STA BK NS HC Signal Intensity • COL4A1 1424.66 GLPGLPGPKGFA • COL4A2 1126.51 PGQQGNPGAQGLPGP • COL4A3 1161.52 GEPGPPGPPGNLG • COL4A4 1218.55 GLPGPPGPKGPRG  • COL4A5 1142.51 GPPGPPGPLGPLG • COL4A5 1733.76 GIKGEKGNPGQPGLPGLP • COL4A6 1158.52 GLPGPPGPPGPPS • COL5A1 1748.82 KGPQGKPGLAGMPGANGPP • COL5A3 1180.54 GPPGFPGDPGPPG • COL7A1 1690.80 PGLPGQVGETGKPGAPGR • COL9A1 1732.84 KRPDSGATGLPGRPGPPG • COL11A1 1441.64 GPPGPPGLPGPQGPKG • COL11A1 1828.84 DGPPGPPGERGPQGPQGPV • COL17A1 1368.62 LPGPPGPPGSFLSN 14 1 2 3 4 5 6 7 8 9 10 11 12 13

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