Open Access Highly Accessed Research article

Parallel DNA pyrosequencing unveils new zebrafish microRNAs

Ana R Soares12, Patrícia M Pereira1, Bruno Santos3, Conceição Egas23, Ana C Gomes3, Joel Arrais4, José L Oliveira4, Gabriela R Moura1 and Manuel AS Santos1*

Author Affiliations

1 RNA Biology Laboratory, Department of Biology & CESAM, University of Aveiro, 3810-193 Aveiro, Portugal

2 Centre for Neuroscience and Cell Biology, University of Coimbra, 3004-517 Coimbra, Portugal

3 Biocant Research Centre, 3060-197 Cantanhede, Portugal

4 IEETA, University of Aveiro, 3810-193 Aveiro, Portugal

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BMC Genomics 2009, 10:195  doi:10.1186/1471-2164-10-195

Published: 27 April 2009

Additional files

Additional file 1:

Data pipeline analysis. Scheme representing the data pipeline used to analyze pyrosequencing data. (A) includes miRDeep analysis and (B) further processing of miRDeep discarded reads.

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Additional file 2:

List of known miRNAs and miRNA*. List of known miRNAs and miRNA* identified in this study and its distribution in the small RNA libraries.

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Additional file 3:

Number of miRNA reads and unique miRNAs throughout development (A) and mature tissues (B). Correlation between the numbers of miRNA reads for each tagged sample and the number of unique miRNAs of each sample.

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Additional file 4:

Putative novel miRNAs. List of the novel miRNAs identified, together with information about genomic location, conservation, expression, number of reads and presence or absence of a star sequence.

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Additional file 5:

Targets for novel miRNAs. List of the genes that are targets of the novel miRNAs and their classification by GO terms.

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