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.

Afiliación

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 en 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/.

Asunto(s)

Biología Computacional/métodos; Perfilación de la Expresión Génica/métodos; MicroARNs/genética; Animales; Biomarcadores; Femenino; Regulación de la Expresión Génica; Humanos; Masculino; Especificidad de Órganos/genética; Interferencia de ARN; Ratas

Palabras clave

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

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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Biología Computacional / Perfilación de la Expresión Génica / MicroARNs Límite: Animals / Female / Humans / Male Idioma: En Revista: RNA Biol Asunto de la revista: BIOLOGIA MOLECULAR Año: 2020 Tipo del documento: Article País de afiliación: Estados Unidos

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