Oncotarget

Research Papers:

Classification of pediatric acute myeloid leukemia based on miRNA expression profiles

Askar Obulkasim, Jenny E. Katsman-Kuipers, Lonneke Verboon, Mathijs Sanders, Ivo Touw, Mojca Jongen-Lavrencic, Rob Pieters, Jan-Henning Klusmann, C. Michel Zwaan, Marry M. van den Heuvel-Eibrink and Maarten Fornerod _

PDF  |  HTML  |  Supplementary Files  |  How to cite  |  Order a Reprint

Oncotarget. 2017; 8:33078-33085. https://doi.org/10.18632/oncotarget.16525

Metrics: PDF 1657 views  |   HTML 2677 views  |   ?  


Abstract

Askar Obulkasim1, Jenny E. Katsman-Kuipers1, Lonneke Verboon1, Mathijs Sanders2, Ivo Touw2, Mojca Jongen-Lavrencic2, Rob Pieters1,3, Jan-Henning Klusmann4, C. Michel Zwaan1, Marry M. van den Heuvel-Eibrink1,3, Maarten Fornerod1

1Pediatric Oncology-Hematology, Erasmus MC, Sophia Children’s Hospital, The Netherlands

2Department of Hematology, ErasmusMC, Rotterdam, The Netherlands

3Prinses Máxima Center for Pediatric Oncology, Utrecht, The Netherlands

4Department of Pediatric Hematology and Oncology, Hannover Medical School, Hannover, Germany

Correspondence to:

Maarten Fornerod, email: m.fornerod@erasmusmc.nl

Keywords: microRNA, acute myeloid leukemia, pediatric, classification, cytogenetic aberration

Received: October 27, 2016     Accepted: March 01, 2017     Published: March 23, 2017

ABSTRACT

Pediatric acute myeloid leukemia (AML) is a heterogeneous disease with respect to biology as well as outcome. In this study, we investigated whether known biological subgroups of pediatric AML are reflected by a common microRNA (miRNA) expression pattern. We assayed 665 miRNAs on 165 pediatric AML samples. First, unsupervised clustering was performed to identify patient clusters with common miRNA expression profiles. Our analysis unraveled 14 clusters, seven of which had a known (cyto-)genetic denominator. Finally, a robust classifier was constructed to discriminate six molecular aberration groups: 11q23-rearrangements, t(8;21)(q22;q22), inv(16)(p13q22), t(15;17) (q21;q22), NPM1 and CEBPA mutations. The classifier achieved accuracies of 89%, 95%, 95%, 98%, 91% and 96%, respectively. Although lower sensitivities were obtained for the NPM1 and CEBPA (32% and 66%), relatively high sensitivities (84%−94%) were attained for the rest. Specificity was high in all groups (87%−100%). Due to a robust double-loop cross validation procedure employed, the classifier only employed 47 miRNAs to achieve the aforementioned accuracies. To validate the 47 miRNA signatures, we applied them to a publicly available adult AML dataset. Albeit partial overlap of the array platforms and molecular differences between pediatric and adult AML, the signatures performed reasonably well. This corroborates our claim that the identified miRNA signatures are not dominated by sample size bias in the pediatric AML dataset. In conclusion, cytogenetic subtypes of pediatric AML have distinct miRNA expression patterns. Reproducibility of the miRNA signatures in adult dataset suggests that the respective aberrations have a similar biology both in pediatric and adult AML.


Creative Commons License All site content, except where otherwise noted, is licensed under a Creative Commons Attribution 3.0 License.
PII: 16525