RATEmiRs: the rat atlas of tissue-specific and enriched miRNAs for discerning baseline expression exclusivity of candidate biomarkers.

Bushel, Pierre R; Caiment, Florian; Wu, Han; O'Lone, Raegan; Day, Frank; Calley, John; Smith, Aaron; Li, Jianying; Harrill, Alison H

Bushel, Pierre R; Caiment, Florian; Wu, Han; O'Lone, Raegan; Day, Frank; Calley, John; Smith, Aaron; Li, Jianying; Harrill, Alison H.

Afiliação

Bushel PR; Biostatistics and Computational Biology Branch, National Institute of Environmental Health Sciences, Research Triangle Park, Durham, NC, USA.
Caiment F; Microarray and Genome Informatics Group, National Institute of Environmental Health Sciences, Research Triangle Park, Durham, NC, USA.
Wu H; Department of Toxicogenomics, Maastricht University, Maastricht, The Netherlands.
O'Lone R; Department of Discovery and Development Statistics, Lilly Research Laboratories, Lilly Corporate Center, Indianapolis, IN, USA.
Day F; eSTAR, Health and Environmental Sciences Institute, Washington, DC, USA.
Calley J; Office of Scientific Computing, National Institute of Environmental Health Sciences, Research Triangle Park, Durham, NC, USA.
Smith A; Department of TTX Bioinformatics, Lilly Research Laboratories, Lilly Corporate Center, Indianapolis, IN, USA.
Li J; Department of Investigative Toxicology, Non-Clinical Safety Assessment and Pathology, Lilly Research Laboratories, Lilly Corporate Center, Indianapolis, IN, USA.
Harrill AH; Microarray and Genome Informatics Group, National Institute of Environmental Health Sciences, Research Triangle Park, Durham, NC, USA.

RNA Biol ; 17(5): 630-636, 2020 05.

Article em En | MEDLINE | ID: mdl-32009518

ABSTRACT

ABSTRACT

MicroRNAs (miRNAs) are small RNAs that regulate mRNA expression and have been targeted as biomarkers of organ damage and disease. To explore the utility of miRNAs to assess injury to specific tissues, a tissue atlas of miRNA abundance was constructed. The Rat Atlas of Tissue-specific and Enriched miRNAs (RATEmiRs) catalogues miRNA sequencing data from 21 and 23 tissues in male and female Sprague-Dawley rats, respectively. RATEmiRs identifies tissue-enriched (TE), tissue-specific (TS), or organ-specific (OS) miRNAs via comparisons of one or more tissue or organ vs others. We provide a brief overview of RATEmiRs and present how to use it to detect miRNA expression abundance of candidate biomarkers as well as to compare the expression of miRNAs between rat and human. The database is available at https//www.niehs.nih.gov/ratemirs/.

Assuntos

Biologia Computacional/métodos; Perfilação da Expressão Gênica/métodos; MicroRNAs/genética; Animais; Biomarcadores; Feminino; Regulação da Expressão Gênica; Humanos; Masculino; Especificidade de Órgãos/genética; Interferência de RNA; Ratos

Palavras-chave

RATEmiRs; RNA-Seq; biomarker; miRNA expression; microRNA; organ-specific; tissue-enriched; tissue-specific

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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Biologia Computacional / Perfilação da Expressão Gênica / MicroRNAs Limite: Animals / Female / Humans / Male Idioma: En Ano de publicação: 2020 Tipo de documento: Article

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