miRBase: microRNA Sequences and Annotation
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- Abstract
- Table of Contents
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Abstract
miRBase is the central repository for microRNA (miRNA) sequence information. miRBase has a role in defining the nomenclature for miRNA genes and assigning names to novel miRNAs for publication in peer?reviewed journals. The online miRBase database is a resource containing all published miRNA sequences, together with textual annotation and links to the primary literature and to other secondary databases. The database provides a variety of methods to query the data, by specific searches of sequences and associated text and literature. All miRBase data are also available for download from the miRBase FTP site. Curr. Protoc. Bioinform. 29:12.9.1?12.9.10. © 2010 by John Wiley & Sons, Inc.
Keywords: microRNA; miRNA; miRBase
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- Introduction
- Basic Protocol 1: Retrieving microRNA Sequences and Annotation via the miRBase Web Interface
- Alternate Protocol 1: Local Searches of Downloaded miRNA Sequences
- Guidelines for Understanding Results
- Commentary
- Literature Cited
- Figures
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Figure 12.9.1 Results of a search of stem‐loop miRNAs with a query sequence using BLAST at the miRBase Web site. The hits are summarized in the table, followed by an alignment of the query sequence to each hit. Parameters of the search are summarized below. View Image -
Figure 12.9.2 A typical miRNA entry page in the miRBase database. Sections summarize the available information about the stem‐loop precursor, the derived mature miRNA sequences, and literature references. View Image -
Figure 12.9.3 Results of a search of mature miRNA sequences with a 23 base query sequence using SSEARCH on the miRBase Web site. The hits are summarized in the table, followed by alignments of the query to each hit. Parameters of the search are summarized below. View Image
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Literature Cited
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