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July, 2004
RNAdb becomes publicly available (version 1.0). Five separate datasets are provided, including: i) Curated from literature; ii) Fantom2; iii) H-invitational; iv) Human chromosome 7 project; and v) Antisense ncRNA pipeline. Approximately 20,000 sequences are listed in total.
January, 2005
RNAdb appears in Nucleic Acids Research, database issue.
February, 2005
Note: Previously, for version 1.0, we indicated that RNAdb entries "did not contain a significant ORF (ie. less than 100 amino acids)." It has come to our attention recently that some of the entries in the database - despite not being felt to have significant coding potential by the original authors - do in fact have potential ORFs > 100 amino acids. Mainly, this applies to the Fantom dataset where the original classification of noncoding clones was assigned by manual annotation. In a few cases, some entries in the "Curated from Literature" table have alse been found to have ORFs>100aa but generally these transcripts were felt to be noncoding by the original authors, and have been included in RNAdb for this reason. We apologise for any misunderstanding our original statement may have caused.
September, 2006
RNAdb is extensively updated and re-released (version 2.0). Existing datasets are updated and replaced with i) miRNAs; ii) snoRNAs and scaRNAs; iii) other ncRNAs from the literature; iv) FANTOM3 ncRNAs; v) H-Invitational ncRNAs; and vi) antisense ncRNAs. In addition, two new datasets are added: vii) piRNAs and viii) ncRNAs predicted from structural alignments. More than 200,000 sequences are listed in total. Other improvements to the database include inclusion of microarray-based expression data and closer interface with more specialized ncRNA resources (e.g. miRBase and snoRNA-LBME-db),.
October, 2006
A number of stylistic and functional changes have been made to the website:
1. The default page of the database has now been changed to allow immediate access to the database.
2. To simplify the layout and menu, the articles, links, books, events and discussion pages have all now been moved to a sub-page under the "Portal" heading.
3. In what will be an ongoing effort over the next month or two, various ncRNA datasets have been provided as BED files which can be viewed as custom tracks on the UCSC Genome Browser.
4. The keyword and BLAST search facilities have been altered to allow users to perform searches simultaneously across all datasets.
December, 2006
The piRNA dataset has been expanded to include more than 176,000 sequences from Aravin et al., 2006, Girard et al., 2006, and Lau et al., 2006.
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