Identification of microRNA-regulated pathways using an integration of microRNA-mRNA microarray and bioinformatics analysis in CD34+ cells of myelodysplastic syndromes

Xu, Feng; Yang, Zhu; He, Qi; Wu, Lingyun; Zhang, Zheng; Shi, Wenhui; Liu, Li; Chang, Chen

doi:10.1038/srep32232

Cited by 13 publications

(11 citation statements)

References 28 publications

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“…Indeed, the miRNA-181 family has been implicated previously both in the discrimination of cases of AML from normal controls 14,18,49 and from high risk MDS from low risk disease, a distinction partly made on the bases of blast count. 15,16 We therefore interrogated the miRNA expression patterns using linear regression with blast percentage as the outcome and miRNA expression level as the primary predictor. Adjusting for age, we did not find any miRNAs associated with blast percentage after adjusting for multiple comparisons using the Benjamini Hochberg false discovery rate approach.…”

Section: Resultsmentioning

confidence: 99%

“…Since the particle preparations also contain full ranges of maturation of the lineages, these results are not directly comparable to other worthy studies that examined specifically CD34+ cells. 11,16,18 …”

Section: Discussionmentioning

confidence: 99%

“…10 Our group and others have published miRNA signatures of non-5q minus subtypes of MDS. 11-16 In addition, miRNAs that characterize AML have been identified. 17-22 We hypothesize that miRNAs are also implicated in the development of the maturation block that characterizes MDS transformation to AML.…”

Section: Introductionmentioning

confidence: 99%

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MicroRNAs and tRNA-derived fragments predict the transformation of myelodysplastic syndromes to acute myeloid leukemia

Guo

Strickland

Mohan

et al. 2017

Leukemia & Lymphoma

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Myelodysplastic syndromes (MDS) are clonal hematopoietic disorders of the elderly that carry an increased risk of progression to acute myeloid leukemia (AML). Since small non-coding RNAs (sRNAs), including microRNA (miRNAs), act as regulators of cellular differentiation, we hypothesized that changes to sRNAs might be implicated in the progression of MDS to AML. We conducted sRNA sequencing on three sets of patients: Group A (MDS patients who never progressed to AML); Group B (MDS patients who later progressed to an AML); and Group C (AML patients with myelodysplasia-related changes, including patients with a known preceding diagnosis of MDS). We identified five miRNAs that differentiated Groups A and B, independent of bone marrow blast percentage, including three members of the miR-181 family, as well as differential patterns of miRNA isoforms (isomiRs) and tDRs. Thus, we have identified sRNA biomarkers that predict MDS cases that are likely to progress to AML.

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Section: Resultsmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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MicroRNAs and tRNA-derived fragments predict the transformation of myelodysplastic syndromes to acute myeloid leukemia

Guo

Strickland

Mohan

et al. 2017

Leukemia & Lymphoma

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“…The miRNA microarrays were used to analyze miRNA expression pattern in fast and slow muscles (LC-Bio Hangzhou, China) as referenced by Xu et al . 49 . Chip hybridizations were performed overnight on a μParaflo microfluidic chip using a microcirculation pump (Atactic Technologies).…”

Section: Methodsmentioning

confidence: 99%

Proteomic and microRNA Transcriptome Analysis revealed the microRNA-SmyD1 network regulation in Skeletal Muscle Fibers performance of Chinese perch

Chu

Zhang

Song³

et al. 2017

Sci Rep

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Fish myotomes are comprised of anatomically segregated fast and slow muscle fibers that possess different metabolic and contractile properties. Although the expression profile properties in fast and slow muscle fibers had been investigated at the mRNA levels, a comprehensive analysis at proteomic and microRNA transcriptomic levels is limited. In the present study, we first systematically compared the proteomic and microRNA transcriptome of the slow and fast muscles of Chinese perch (Siniperca chuatsi). Total of 2102 proteins were identified in muscle tissues. Among them, 99 proteins were differentially up-regulated and 400 were down-regulated in the fast muscle compared with slow muscle. MiRNA microarrays revealed that 199 miRNAs identified in the two types of muscle fibers. Compared with the fast muscle, the 32 miRNAs was up-regulated and 27 down-regulated in the slow muscle. Specifically, expression of miR-103 and miR-144 was negatively correlated with SmyD1a and SmyD1b expression in fast and slow muscles, respectively. The luciferase reporter assay further verified that the miR-103 and miR-144 directly regulated the SmyD1a and SmyD1b expression by targeting their 3′-UTR. The constructed miRNA-SmyD1 interaction network might play an important role in controlling the development and performance of different muscle fiber types in Chinese perch.

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“…Due to the fact that a single miRNA can target several hundred mRNAs, alterations in the miRNA expression can affect a variety of cellular processes involved in disease initiation and progression [ 111 ]. Mechanisms, by which miRNAs promote MDS/sAML are mediated by different signaling pathways including inflammation [ 112 , 113 , 114 , 115 ]. Therefore, targets of miRNAs were classified concerning their function and participation in signaling cascades using bioinformatics annotation tools.…”

Section: Functional Relevance Of Differentially Expressed Mirnas Imentioning

confidence: 99%

Expression, Regulation and Function of microRNA as Important Players in the Transition of MDS to Secondary AML and Their Cross Talk to RNA-Binding Proteins

Bauer

Vaxevanis

Heimer

et al. 2020

IJMS

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Myelodysplastic syndromes (MDS), heterogeneous diseases of hematopoietic stem cells, exhibit a significant risk of progression to secondary acute myeloid leukemia (sAML) that are typically accompanied by MDS-related changes and therefore significantly differ to de novo acute myeloid leukemia (AML). Within these disorders, the spectrum of cytogenetic alterations and oncogenic mutations, the extent of a predisposing defective osteohematopoietic niche, and the irregularity of the tumor microenvironment is highly diverse. However, the exact underlying pathophysiological mechanisms resulting in hematopoietic failure in patients with MDS and sAML remain elusive. There is recent evidence that the post-transcriptional control of gene expression mediated by microRNAs (miRNAs), long noncoding RNAs, and/or RNA-binding proteins (RBPs) are key components in the pathogenic events of both diseases. In addition, an interplay between RBPs and miRNAs has been postulated in MDS and sAML. Although a plethora of miRNAs is aberrantly expressed in MDS and sAML, their expression pattern significantly depends on the cell type and on the molecular make-up of the sample, including chromosomal alterations and single nucleotide polymorphisms, which also reflects their role in disease progression and prediction. Decreased expression levels of miRNAs or RBPs preventing the maturation or inhibiting translation of genes involved in pathogenesis of both diseases were found. Therefore, this review will summarize the current knowledge regarding the heterogeneity of expression, function, and clinical relevance of miRNAs, its link to molecular abnormalities in MDS and sAML with specific focus on the interplay with RBPs, and the current treatment options. This information might improve the use of miRNAs and/or RBPs as prognostic markers and therapeutic targets for both malignancies.

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Identification of microRNA-regulated pathways using an integration of microRNA-mRNA microarray and bioinformatics analysis in CD34+ cells of myelodysplastic syndromes

Cited by 13 publications

References 28 publications

MicroRNAs and tRNA-derived fragments predict the transformation of myelodysplastic syndromes to acute myeloid leukemia

MicroRNAs and tRNA-derived fragments predict the transformation of myelodysplastic syndromes to acute myeloid leukemia

Proteomic and microRNA Transcriptome Analysis revealed the microRNA-SmyD1 network regulation in Skeletal Muscle Fibers performance of Chinese perch

Expression, Regulation and Function of microRNA as Important Players in the Transition of MDS to Secondary AML and Their Cross Talk to RNA-Binding Proteins

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