Secondary structure-based analysis of mouse brain small RNA sequences obtained by using next-generation sequencing.

Kiyosawa, Hidenori; Okumura, Akio; Okui, Saya; Ushida, Chisato; Kawai, Gota

Kiyosawa, Hidenori; Okumura, Akio; Okui, Saya; Ushida, Chisato; Kawai, Gota.

Afiliação

Kiyosawa H; Department of Environmental Medicine, Kochi Medical School, Kochi University, Oko-cho Kohasu, Nankoku, Kochi 793-8505, Japan. Electronic address: kiyosawa-fks@umin.org.
Okumura A; Department of Life and Environmental Sciences, Faculty of Engineering, Chiba Institute of Technology, Tsudanuma, Narashino, Chiba 275-0016, Japan.
Okui S; Department of Life and Environmental Sciences, Faculty of Engineering, Chiba Institute of Technology, Tsudanuma, Narashino, Chiba 275-0016, Japan.
Ushida C; Department of Biochemistry and Molecular Biology, Faculty of Agriculture and Life Science, Hirosaki University, 3 Bunkyo-cho, Hirosaki, Aomori 036-8561, Japan.
Kawai G; Department of Life and Environmental Sciences, Faculty of Engineering, Chiba Institute of Technology, Tsudanuma, Narashino, Chiba 275-0016, Japan. Electronic address: gkawai@sea.it-chiba.ac.jp.

Genomics ; 106(2): 122-8, 2015 Aug.

Article em En | MEDLINE | ID: mdl-26003051

ABSTRACT

ABSTRACT

In order to find novel structured small RNAs, next-generation sequencing was applied to small RNA fractions with lengths ranging from 40 to 140 nt and secondary structure-based clustering was performed. Sequences of structured RNAs were effectively clustered and analyzed by secondary structure. Although more than 99% of the obtained sequences were known RNAs, 16 candidate mouse structured small non-coding RNAs (MsncRs) were isolated. Based on these results, the merits of secondary structure-based analysis are discussed.

Assuntos

Química Encefálica; Pequeno RNA não Traduzido/química; Animais; Análise por Conglomerados; Sequenciamento de Nucleotídeos em Larga Escala; Masculino; Camundongos; Conformação de Ácido Nucleico; Análise de Sequência de RNA

Palavras-chave

Next-generation sequencing; Secondary structure-based clustering; Structured non-coding RNA

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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Química Encefálica / Pequeno RNA não Traduzido Limite: Animals Idioma: En Revista: Genomics Assunto da revista: GENETICA Ano de publicação: 2015 Tipo de documento: Article

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