We are pleased to announce the second public release of RNAcentral, which includes the addition of two new Expert Databases (PDBe and snOPY), and a host of new website features and user interface improvements.
RNAcentral maintains a public Events calendar, which will be updated if the release dates need to be adjusted. You can subscribe to the calendar using the links below.
RNAcentral Events public calendar: HTML | XML | iCal
New data
- New expert database: PDBe
The Protein Data Bank Europe is a member of the Worldwide Protein Data Bank (wwPDB). It provides access to experimentally determined 3D structures of nucleic acids, proteins, and complex assemblies. Now you can explore PDB sequences in RNAcentral or search RNAcentral for your favourite PDB identifier. - New expert database: snOPY
The snoRNA Orthological Gene Database provides comprehensive information about small nucleolar RNAs (snoRNAs), snoRNA gene loci, and target RNAs as well as information about snoRNA orthologues. Explore snOPY data in RNAcentral. - Updated ENA dataset based on release 122 and daily updates through February, 17
- Updated RefSeq dataset
- Updated human Vega dataset
New website features
- RNAcentral now provides species-specific IDs. For example, RNA sequence URS000019D79B is observed in 11 organisms, but if you would like to view only human annotations, you can use species-specific IDs URS000019D79B/9606 or URS000019D79B_9606, where 9606 is the NCBI taxonomy ID for Homo sapiens.
To switch between species in the website, go to the taxonomy tab and click on the species name:
The species-specific IDs are searchable, for example:
Search results are now downloadable in fasta, json, or accession list formats.
You can also search RNAcentral by literature (author, publication, PubMed ID, or DOI). See examples and the field-specific search syntax on the search help page.
There is a new Publications tab, which shows all publications associated with a sequence. For example, searching for “braveheart” finds ncRNA sequence URS00007E3FCE, which is linked to two papers about braveheart:
other improvements
- new search results ranking that puts sequences from key species at the top of the results list
- keyboard shortcut: press the “/” key to activate the cursor in the search box (just like in Gmail!)
- better compatibility with older browsers (IE <10).
Future plans
The next RNAcentral release is provisionally scheduled for May 20, 2015. If you would like to get your data into RNAcentral in time for Release 3, please make sure that your data is submitted to us by May 6th.RNAcentral maintains a public Events calendar, which will be updated if the release dates need to be adjusted. You can subscribe to the calendar using the links below.
RNAcentral Events public calendar: HTML | XML | iCal