Computational and experimental identification of novel microRNAs in rats

WANG Lin; ZHANG Shuang; DONG Su-zhen

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May 2012

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WANG Lin, ZHANG Shuang, DONG Su-zhen. Computational and experimental identification of novel microRNAs in rats[J]. Journal of East China Normal University (Natural Sciences), 2012, (3): 154-160,170.

Citation:

WANG Lin, ZHANG Shuang, DONG Su-zhen. Computational and experimental identification of novel microRNAs in rats[J]. Journal of East China Normal University (Natural Sciences), 2012, (3): 154-160,170.

WANG Lin, ZHANG Shuang, DONG Su-zhen. Computational and experimental identification of novel microRNAs in rats[J]. Journal of East China Normal University (Natural Sciences), 2012, (3): 154-160,170.

Citation:

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Computational and experimental identification of novel microRNAs in rats

1.
Key Laboratory of Brain Functional Genomics, Ministory of Education, Shanghai Key Laboratory of Brain Functional Genomics, East China Normal University, Shanghai 200062, China

Received Date: 2011-03-01
Rev Recd Date: 2011-06-01
Publish Date: 2012-05-25

Abstract

Abstract

The number of miRNAs in rat genome in miRBase is much less than that of mouse and human. One effective method to identify new miRNAs is to utilize the homolog- based bioinformatrical method. In this report, this method was applied to predict new miRNAs of rats. The known miRNAs sequences were downloaded from miRBase, and used as query sequences to search the rat genome at UCSC Genome Bioinformatics by BLAT analysis. New miRNAs were selected based on commonly- used miRNA standards. As a result, 45 new miRNAs were obtained. Nine of them were chosen to be validated by RT- PCR, and most of them were found expressed in brain, heart, lung, kidney, muscle, spleen, testis and liver. Based on the results, miRNA cluster analysis and miRNA gene family analysis were performed in rat genome.
- miRNA,
- rat,
- bioinformatics,
- homology search

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References(1)

References

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