Identification of long non-coding RNA competing interactions and biological pathways associated with prognosis in pediatric and adolescent cytogenetically normal acute myeloid leukemia

Abstract

BackgroundLncRNAs can regulate miRNAs and mRNAs by sequestering and binding them. Indeed, many researchers have reported lncRNA mediated-competing endogenous RNAs (ceRNAs) could regulate the progression of solid tumors. However, the roles of ceRNA in acute myeloid leukemia (AML), especially in pediatric and adolescent AML, were not completely expounded.Materials and methods27 cytogenetically normal acute myeloid leukemia (CN-AML) patients under 18 years old with corresponding clinical data were selected from the cancer genome atlas (TCGA), which was a large sample sequencing database of RNA sequencing. We constructed a survival specific ceRNA network, and investigated its associations with patients’ clinical information by analyzing the data from TCGA.ResultsWe identified survival specific lncRNAs, miRNAs and mRNAs, and constructed a survival specific ceRNA network of CN-AML patients and a weighted correlation network. Furthermore, we identified 4 biological pathways associated with OS and selected the most enriched pathway ‘Transcriptional misregulation in cancer’ to verify that it could accurately predict younger CN-AML patients’ prognosis to guide treatment.ConclusionsWe successfully constructed a survival specific ceRNA network which could provide a new approach to lncRNA research in younger CN-AML. Importantly, we constructed a weighted correlation network to overcome the difficulty in biological interpretation of individual genes.Electronic supplementary materialThe online version of this article (10.1186/s12935-018-0621-0) contains supplementary material, which is available to authorized users.

Long Non-coding RNAs in Myeloid Malignancies

“…On the one hand, MEG3 is upregulated in APL (122), whereas in AML cell lines, it was found to function as a tumor suppressor (123). On the other hand, TCGA analysis revealed that CRINDE is downregulated in APL (122) and upregulated in bone marrow stem cells (124), bone marrow samples and AML cell lines (125). This could be attributed to the fact that the AML cell lines were harvested from patients with other AML subtypes or due to differences in gene expression analysis.…”

LncRNA KCNQ1OT1 controls cell proliferation, differentiation and apoptosis by sponging miR-326 to regulate c-Myc expression in acute myeloid leukemia

“…Long noncoding RNAs (lncRNAs) are confined to transcripts lacking significant ORFs with more than 200 nt in length, which play important roles in tumorigenesis in progression of disorders, including AML [3]. Moreover, lncRNAs have been reported to be associated with prognosis of AML by functioning as competing endogenous RNAs (ceRNAs) [4]. Previous studies have reported that lncRNAs are implicated in AML progression by regulating cell processes, including proliferation, apoptosis, migration, invasion and differentiation [5][6][7].…”

The Study of Sarcoma Microenvironment Heterogeneity Associated With Prognosis Based on an Immunogenomic Landscape Analysis

“…Since mir-23b and mir-27b belong to the same family, the expression levels of the two miRNAs also showed a very high positive correlation. Several lncRNAs have been identified as the signatures of prognosis or tumor recurrence, such as AC092811.1, LINC00326, and C20orf197 ( Yin et al, 2018 ; Zhu et al, 2019 ; Zhao et al, 2020 ). The correlation between miRNA and lncRNA is weaker in the TME with a worse prognosis than the TME with a better prognosis.…”