OpenLB
Open Library of Bioscience
Advanced Search
Nucleic acids research
01 04, 2017;45 (D1): D128-D134.

RNAcentral: a comprehensive database of non-coding RNA sequences.

The RNAcentral Consortium, Anton I Petrov, Simon J E Kay, Ioanna Kalvari, Kevin L Howe, Kristian A Gray, Elspeth A Bruford, Paul J Kersey, Guy Cochrane, Robert D Finn, Alex Bateman, Ana Kozomara, Sam Griffiths-Jones, Adam Frankish, Christian W Zwieb, Britney Y Lau, Kelly P Williams, Patricia P Chan, Todd M Lowe, Jamie J Cannone, Robin Gutell, Magdalena A Machnicka, Janusz M Bujnicki, Maki Yoshihama, Naoya Kenmochi, Benli Chai, James R Cole, Maciej Szymanski, Wojciech M Karlowski, Valerie Wood, Eva Huala, Tanya Z Berardini, Yi Zhao, Runsheng Chen, Weimin Zhu, Maria D Paraskevopoulou, Ioannis S Vlachos, Artemis G Hatzigeorgiou, Lina Ma, Zhang Zhang, Joern Puetz, Peter F Stadler, Daniel McDonald, Siddhartha Basu, Petra Fey, Stacia R Engel, J Michael Cherry, Pieter-Jan Volders, Pieter Mestdagh, Jacek Wower, Michael B Clark, Xiu Cheng Quek, Marcel E Dinger
Author Information
PMID: 27794554 DOI: 10.1093/nar/gkw1008

Abstract

RNAcentral is a database of non-coding RNA (ncRNA) sequences that aggregates data from specialised ncRNA resources and provides a single entry point for accessing ncRNA sequences of all ncRNA types from all organisms. Since its launch in 2014, RNAcentral has integrated twelve new resources, taking the total number of collaborating database to 22, and began importing new types of data, such as modified nucleotides from MODOMICS and PDB. We created new species-specific identifiers that refer to unique RNA sequences within a context of single species. The website has been subject to continuous improvements focusing on text and sequence similarity searches as well as genome browsing functionality. All RNAcentral data is provided for free and is available for browsing, bulk downloads, and programmatic access at http://rnacentral.org/.

References

  1. Nucleic Acids Res. 2016 Jan 4;44(D1):D203-8 [PMID: 26586799]
  2. Nucleic Acids Res. 2013 Jan;41(Database issue):D590-6 [PMID: 23193283]
  3. Nucleic Acids Res. 2012 Jan;40(Database issue):D700-5 [PMID: 22110037]
  4. Nucleic Acids Res. 2013 Jan;41(Database issue):D262-7 [PMID: 23118484]
  5. Genesis. 2015 Aug;53(8):474-85 [PMID: 26201819]
  6. RNA. 2016 May;22(5):667-76 [PMID: 26917558]
  7. BMC Bioinformatics. 2002;3:2 [PMID: 11869452]
  8. Nucleic Acids Res. 2015 Jan;43(Database issue):D153-9 [PMID: 25416803]
  9. Nucleic Acids Res. 2016 Jan 4;44(D1):D710-6 [PMID: 26687719]
  10. Retrovirology. 2016 May 03;13(1):33 [PMID: 27141823]
  11. Nat Methods. 2015 Sep;12(9):879-84 [PMID: 26237225]
  12. Bioinformatics. 2010 Aug 15;26(16):2057-9 [PMID: 20562414]
  13. Science. 2015 Sep 11;349(6253):1191-8 [PMID: 26292705]
  14. PLoS One. 2016 Feb 19;11(2):e0148940 [PMID: 26895175]
  15. Nucleic Acids Res. 2015 Jan;43(Database issue):D130-7 [PMID: 25392425]
  16. Nucleic Acids Res. 2013 Jan;41(Database issue):D676-83 [PMID: 23172289]
  17. PLoS One. 2013 Nov 14;8(11):e80673 [PMID: 24244704]
  18. Bioinformatics. 2013 Oct 1;29(19):2487-9 [PMID: 23842809]
  19. Nucleic Acids Res. 2015 Jan;43(Database issue):D656-61 [PMID: 25361970]
  20. Nucleic Acids Res. 2016 Jan 4;44(D1):D574-80 [PMID: 26578574]
  21. Wiley Interdiscip Rev RNA. 2015 Jul-Aug;6(4):381-97 [PMID: 25879954]
  22. Cell Mol Life Sci. 2016 Aug;73(16):3075-95 [PMID: 27094388]
  23. ISME J. 2012 Mar;6(3):610-8 [PMID: 22134646]
  24. Mol Cell. 2014 Apr 10;54(1):147-155 [PMID: 24685157]
  25. Nucleic Acids Res. 2016 Jan 4;44(D1):D786-92 [PMID: 26467478]
  26. Nucleic Acids Res. 2016 Sep 30;44(17):8433-41 [PMID: 27330139]
  27. Nucleic Acids Res. 2015 Jan;43(Database issue):D174-80 [PMID: 25378313]
  28. Nucleic Acids Res. 2015 Jul 1;43(W1):W585-8 [PMID: 25855807]
  29. Nucleic Acids Res. 2016 Jan 4;44(D1):D385-95 [PMID: 26476444]
  30. Nucleic Acids Res. 2015 Jan;43(Database issue):D743-50 [PMID: 25355511]
  31. Nucleic Acids Res. 2014 Jan;42(Database issue):D633-42 [PMID: 24288368]
  32. Wiley Interdiscip Rev RNA. 2017 Mar;8(2): [PMID: 27489248]
  33. Nucleic Acids Res. 2012 Jan;40(Database issue):D735-41 [PMID: 22067452]
  34. Nucleic Acids Res. 2016 Jan 4;44(D1):D231-8 [PMID: 26612864]
  35. Genome Biol. 2011;12(4):221 [PMID: 21554756]
  36. BMC Res Notes. 2013 Oct 23;6:426 [PMID: 24148649]
  37. Nucleic Acids Res. 2016 Sep 19;44(16):7884-95 [PMID: 27257078]
  38. Nucleic Acids Res. 2016 Jan 4;44(D1):D717-25 [PMID: 26590259]
  39. Eur J Hum Genet. 2014 Aug;22(8):1040-5 [PMID: 24448545]
  40. Nucleic Acids Res. 2016 Jan 4;44(D1):D184-9 [PMID: 26673694]
  41. RNA. 2011 Nov;17(11):1941-6 [PMID: 21940779]
  42. Mol Cell Biol. 1998 Dec;18(12):6897-909 [PMID: 9819378]
  43. Biochimie. 2011 Apr;93(4):725-9 [PMID: 21237242]
  44. Bioinformatics. 2015 Oct 15;31(20):3377-9 [PMID: 26099263]
  45. Nucleic Acids Res. 2015 Jan;43(Database issue):D123-9 [PMID: 25352543]
  46. Mol Cell. 2007 May 11;26(3):311-21 [PMID: 17499039]

Grants

  1. /Wellcome Trust
  2. R01 HG006753/NHGRI NIH HHS
  3. U24 HG003345/NHGRI NIH HHS
  4. BB/J019232/1/Biotechnology and Biological Sciences Research Council

MeSH Term

Animals
Databases, Nucleic Acid
Genomics
Humans
Nucleotides
RNA, Untranslated
Sequence Analysis, RNA
Species Specificity

Chemicals

Nucleotides
RNA, Untranslated
Journal Article Research Support, Non-U.S. Gov't

Word Cloud

Similar Articles

Cited By