Table 1.
Published studies on miRNA expression in human kidney transplants
| PMID (Journal) | First Author (Year) | Specimen | Profiling technique | Targeted or global profiling | Platform | Company | Patients/Diagnosis | Major Findings |
|---|---|---|---|---|---|---|---|---|
| 18346642 (Transpl Immunol) | Sui (2008) | Biopsy tissue | Microarray PCR |
Global Targeted |
LNA-based miChip - |
University of Heidelberg, Germany - |
3 AR & 3 Native kidney control (RNA pooled in each group) | AR: 8 miRNAs Up & 12 miRNAs Down PCR for 2 miRNAs AR: Up-miR-320 Down-miR-324–3p |
| 19289845 (Proc Natl Acad Sci USA) | Anglicheau (2009) | Biopsy tissue (RNAlater) | PCR (TLDA) PCR |
Global Targeted |
Taqman miRNA Taqman miRNA |
Applied Biosystems/ ThermoFisher | 3 AR & 4 Normal 9 AR & 17 Normal |
ACR: 10 miRNAs Up & 43 miRNAs Down PCR done for 6 miRNAs AR: Up-miR-142–5p, miR-155 & miR-223 Down-miR-10b, miR-30a-3p & let-7c |
| 21794090 (Am J Transplant) | Scian (2011) | Biopsy tissue (RNAlater) Urine |
Microarray PCR PCR |
Global Targeted Targeted |
Sentrix Universal BeadChip array Taqman miRNA Taqman miRNA |
Illumina Applied Biosystems/ ThermoFisher Applied Biosystems/ThermoFisher |
13 IFTA & 5 Normal 32 IFTA & 13 Normal 7 IFTA & 7 Normal |
Differential expression: 56 miRNAs IFTA: Up-miR-32 & miR-142–3p. Down-miR-107, miR-204 & miR-211 IFTA: Up-miR-142–3p. Down-miR-204 & miR-211 |
| 21812927 (Am J Transplant) | Lorenzen (2011) | Urine | PCR | Targeted | Taqman miRNA | Applied Biosystems/ThermoFisher | 68 ACR & 20 Stable | ACR: Up-miR-10a Down-miR-10b & miR-210 |
| 23131772 (Transplantation) | Ben-Dov (2012) | Biopsy tissue (RNAlater) | RNA Seq | Global | Sequencing by synthesis Taqman miRNA | Illumina Applied Biosystems/ThermoFisher | 3 IFTA & 4 Normal 10 IFTA & 8 Normal | IFTA: 9 miRNAs Up & 0 miRNAs Down IFTA Up: miR-21, miR-21* & miR-142–3p |
| 23469132 (PLoS One) | Glowacki (2013) | Serum | PCR | Targeted | Taqman miRNA | Applied Biosystems/ThermoFisher | 42 IFTA | Severe IFTA: Up-miR-21 |
| 23511211 (Transplantation) | Wilflingseder (2013) | Biopsy tissue (FFPE) | Microarray | Global | GeneChip | Affymetrix/ThermoFisher | 10 Stable, 14 DGF, 30 ACR, 11 ABMR |
DGF vs Stable: 7 miRNAs Up & 0 Down ACR vs Stable: 4 miRNAs Up & 18 Down ABMR vs Stable: 6 miRNAs Up & 0 Down |
| 24025639 (Kidney Int) | Maluf (2014) | Urine cells | Microarray PCR PCR |
Global Targeted Targeted |
GeneChip Taqman miRNA Taqman miRNA |
Affymetrix/ThermoFisher Applied Biosystems/ThermoFisher Applied Biosystems/ThermoFisher | IFTA 10 & 12 Normal IFTA 7 & Normal 10 Longitudinal: 41 good graft function & 25 poor graft function |
Differential expression: 22 miRNAs IFTA: Up-miR-125b, Down-miR-125b, miR-203, miR-204 & miR-211 Differential expression: miR-99a, miR-140–3p, miR-142–3p, miR-200* & miR-200b |
| 24731148 (Am J Transplant) | Li 2014) | Plasma | PCR | Targeted | Taqman miRNA | Applied Biosystems/ThermoFisher | 31 BK viremia & 15 Normal | BK viremia: Up-bkv-miR-B1–5p & bkv- miR-B1–3p |
| 25659925 (Exp Cell Res) | Liu (2015) | Biopsy tissue | RNA-Seq | Global Targeted |
Pyrosequencing Taqman miRNA |
454 Life Sciences/Roche Applied Biosystems/ThermoFisher | 15 AR & 15 Normal | Differential expression: 75 miRNAs PCR done for miR-10b. AR: Down-miR-10b |
| 26002284 (Transp Immunol) | Soltaninejad (2015) | Biopsy tissue (RNAlater) PBMC |
PCR PCR |
Targeted Targeted |
Taqman miRNA Taqman miRNA |
Applied Biosystems/ThermoFisher |
17 TCMR & 18 No rejection |
TCMR: Up- miR-142–5p, miR-142–3p, miR-155 & miR-223 TCMR: Up-miR-142–3p & miR-223 |
| 26154388 (Transplantation) | Vitalone (2015) | Biopsy tissue | PCR | Targeted | Taqman miRNA | ThermoFisher | 29 AR & 68 No AR | AR: Up-miR-25, miR-142–3p & miR-342- 3p. Down-miR-10b, miR-181a, miR-192, miR-204, miR-215 & miR-615–3p |
| 26734715 (PLoS One) | MgGuinness (2016) | Biopsy tissue (pre-transplant, RNAlater) | PCR | Targeted | Taqman miRNA | Applied Biosystems/ThermoFisher | 27 DGF 67 No DGF | DGF: Down-miR-125b & miR-217 |
| 26444957 (Transplantation) | Matz (2016) | Whole blood (PAXgene tube) | Microarray PCR | Global Targeted | miRXplore microarray Taqman miRNA |
Miltenyi Biotec Life Technologies/ThermoFisher |
4 TMVR & 4 Stable PCR: 24 TMVR & 137 all other diagnosis |
Differential expression: 23 miRNAs TMVR: Down-miR-15a, miR-15b, miR-16, miR-103a, miR-106a & miR-107 |
| 27663089 (Transpl Immunol) | Matz (2016) | Plasma | PCR | Targeted | Taqman miRNA | Life Technologies/ThermoFisher | 39 TCMR & 40 Stable | TCMR: Down-miR-15b, miR-103a & miR-106a |
| 27521993 (Clin Biochem) | Vahed (2017) | Urine cells | PCR | Targeted | Stem loop primers / iCycler iQ system | Bio-Rad | 23 IFTA, 24 Stable & 15 non-Tx healthy | IFTA (vs. non-Tx healthy): Up-miR-21 & miR-142–3p Down-miR-200b |
| 27323802 (Biomarkers) | Iwasaki (2017) | PBMC | Microarray | Global Targeted Targeted |
miRCURY LNA microarray Taqman miRNA Taqman miRNA |
Exiqon/Qiagen Applied Biosystems/ThermoFisher Applied Biosystems/ThermoFisher |
11 Normal, 11 DSA+normal, 6 DSA+w/graft dysfunction (RNA pooled in each group) 22 Normal, 10 subclinical cABMR, 13 DSA+ w/no graft dysfunction w/other histology, 9 clinical cABMR | Differential expression: 9 miRNAs Normal: Up-miR-142–5p Clinical cABMR: Up-miR-486–5p |
| 28380212 (Braz J Med Biol Res) | Domenico (2017) | PBMC Urine cells | PCR | Targeted Targeted | Taqman miRNA Taqman miRNA | Applied Biosystems/ThermoFisher | 23 AR, 18 ATN, 8 Stable | ATN: Up-miR-142–3p ATN: Up-miR-142–3p |
| 28455659 (Int Urol Nephrol) | Vahed (2017) | Plasma | PCR | Targeted | miRCURY LNA | Exiqon/Qiagen | 26 IFTA & 27 Stable | IFTA: Up-miR-21, miR-142–3p & miR-155 |
| 28880456 (Br J Clin Pharmacol) | Milan (2017) | Urine cells | PCR | Targeted | miRCURY LNA Roche LightCycler 480 | Exiqon/Qiagen Roche | 8 AR & 72 No AR | AR: Up-miR-142–3p & miR-155–5p. Down-miR-210–3p |
| 29267352 (PLoS One) | Kim (2017) | Urine exosomes | PCR | Targeted | Taqman miRNA | Applied Biosystems/ThermoFisher | 13 BK virus nephropathy & 67 Other histology | BK virus nephropathy: Up-bkv-miR-B1–5p |
| 29518695 (J Clin Virol) | Virtanen (2018) | Plasma | PCR | Targeted | Taqman miRNA | Applied Biosystems/ThermoFisher | 9 BK viremia (serial samples) & 2 Normal | BK viremia: Up-bkv-miR-B1–5p & bkv-miR-B1–3p |
AR: Acute rejection
ABMR: Antibody mediated rejection
ACR: Acute cellular rejection
cABMR: Chronic antibody mediated rejection
DGF: Delayed graft function
DSA: Donor specific antibodies
FFPE: Formalin fixed paraffin embedded
IFTA: Interstitial fibrosis and tubular atrophy
PMID: PubMed identifier
TCMR: T-cell mediated rejection
TMVR: T-cell mediated vascular rejection
Tx: Transplant