Google-like full text search engine for genes and transcripts stored in NCBI RefSeq | NaveeNBioinforMaTics-any thing about bioinformatics
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Friday, 13 September 2013

Google-like full text search engine for genes and transcripts stored in NCBI RefSeq

GGRNA is a 'Google-like' full text search engine for genes and transcripts. The web server accepts arbitrary words and phrases such as gene names, IDs, annotations, and even nucleotide/amino-acid sequences as an input, and quickly searches relevant RefSeq transcripts.

Search examples:
  1. homeobox ] [ claudin ] ...... Simple search
  2. "RNA interference" ] ...... Phrase search by enclosing terms with double quotes
  3. Argonaute "PAZ domain" ] ...... Return results that contain [ Argonaute ] AND [ "PAZ domain" ]
  4. NM_001518 ] [ 10579 ] ...... Search for IDs such as RefSeq ID or Gene ID
  5. symbol:VIM ] ...... Search by gene name (symbol or synonym)
  6. ref:Naito ] ...... Search within cited references
  7. 1552311_a_at ] ...... Search for nucleotide sequences by microarray probe IDs
  8. aa:KDEL ] ...... Search for amino-acid sequences
  9. caagaagagattg ] ...... Search for nucleotide sequences
  10. comp:caagaagagattg ] ...... Search for complementary sequences
  11. iub:aggtcannrtgacct ] ...... Search for nucleotide sequences containing degenerate nucleotides (e.g. N,R,Y,...)
  12. How to use in detail ...
What's new:
  1. 2013-07-28 Database updated to RefSeq rel. 60 (Jul, 2013).
  2. 2013-07-24 Source code available via GitHub
  3. 2013-07-08 GGRNA ver.2 released. All organisms in RefSeq are available.
  4. 2012-05-29 GGRNA paper has been published in Nucleic Acids Research.
  5. News archives
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  • Naveen is a volunteer writer and Bioinformaticist from around the world.He is an addicted Web Designer,Freelance Blogger and Code Extractor,You are most welcome to contact him for any query you may have. Read More