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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

MicroRNA expression profiling and functional annotation analysis of their targets in patients with type 1 diabetes mellitus

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Takahashi, Paula [1] ; Xavier, Danilo J. [1] ; Evangelista, Adriane F. [1] ; Manoel-Caetano, Fernanda S. [1] ; Macedo, Claudia [1] ; Collares, Cristhianna V. A. [1, 2] ; Foss-Freitas, Maria C. [3] ; Foss, Milton C. [3] ; Rassi, Diane M. [2] ; Donadi, Eduardo A. [1, 2] ; Passos, Geraldo A. [1, 4, 5] ; Sakamoto-Hojo, Elza T. [1]
Total Authors: 12
Affiliation:
[1] Univ Sao Paulo, Fac Med Ribeirao Preto, Dept Genet, BR-14049900 Ribeirao Preto, SP - Brazil
[2] Univ Sao Paulo, Fac Med Ribeirao Preto, Dept Med, Div Clin Immunol, BR-14048900 Ribeirao Preto, SP - Brazil
[3] Univ Sao Paulo, Fac Med Ribeirao Preto, Dept Internal Med, BR-14048900 Ribeirao Preto, SP - Brazil
[4] Univ Sao Paulo, Fac Dent Ribeirao Preto, Dept Morphol, Discipline Genet, BR-14040904 Ribeirao Preto, SP - Brazil
[5] Univ Sao Paulo, Fac Dent Ribeirao Preto, Dept Morphol, Discipline Mol Biol, BR-14040904 Ribeirao Preto, SP - Brazil
Total Affiliations: 5
Document type: Journal article
Source: Gene; v. 539, n. 2, p. 213-223, APR 15 2014.
Web of Science Citations: 30
Abstract

Type 1 diabetes mellitus (T1DM) results from an autoimmune attack against the insulin-producing pancreatic beta-cells, leading to elimination of insulin production. The exact cause of this disorder is still unclear. Although the differential expression of microRNAs (miRNAs), small non-coding RNAs that control gene expression in a post-transcriptional manner, has been identified in many diseases, including T1DM, only scarce information exists concerning miRNA expression profile in T1DM. Thus, we employed the microarray technology to examine the miRNA expression profiles displayed by peripheral blood mononuclear cells (PBMCs) from T1DM patients compared with healthy subjects. Total RNA extracted from PBMCs from 11 T1DM patients and nine healthy subjects was hybridized onto Agilent human miRNA microarray slides (V3), 8x15K, and expression data were analyzed on R statistical environment. After applying the rank products statistical test, the receiver-operating characteristic (ROC) curves were generated and the areas under the ROC curves (AUC) were calculated. To examine the functions of the differentially expressed (p-value < 0.01, percentage of false-positives <0.05) miRNAs that passed the AUC cutoff value >= 0.90 the database miRWalk was used to predict their potential targets, which were afterwards submitted to the functional annotation tool provided by the Database for Annotation, Visualization, and Integrated Discovery (DAVID), version 6.7, using annotations from the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis. We found 57 probes, corresponding to 44 different miRNAs (35 upregulated and 9 down-regulated), that were differentially expressed in T1DM and passed the AUC threshold of 0.90. The hierarchical clustering analysis indicated the discriminatory power of those miRNAs, since they were able to clearly distinguish T1DM patients from healthy individuals. Target prediction indicated that 47 candidate genes for T1DM are potentially regulated by the differentially expressed miRNAs. After performing functional annotation analysis of the predicted targets, we observed 22 and 12 annotated KEGG pathways for the induced and repressed miRNAs, respectively. Interestingly, many pathways were enriched for the targets of both upand down-regulated miRNAs and the majority of those pathways have been previously associated with T1DM, including many cancer-related pathways. In conclusion, our study indicated miRNAs that may be potential biomarkers of T1DM as well as provided new insights into the molecular mechanisms involved in this disorder.(C) 2014 Elsevier B.V. All rights reserved. (AU)

FAPESP's process: 08/56594-8 - Control of the transcriptome in diabetes mellitus
Grantee:Geraldo Aleixo da Silva Passos Júnior
Support type: Research Projects - Thematic Grants
FAPESP's process: 10/12069-7 - Gene expression profiles and possible interactions between microRNAs and mRNAs in type 1 Diabetes Mellitus, focusing on response to oxidative stress and DNA repair
Grantee:Paula Takahashi
Support type: Scholarships in Brazil - Doctorate