Ariadne: Database search for RNA identification using tandem mass spectrometry data

Overview

• Ariadne is a web-based database search service for the identification of RNAs using tandem mass spectrometry data. A searche can be defined using a common gateway interface (CGI) form to specify a peak list file (MS/MS data) and a search parameter file, which are then uploaded to this server. For our policy of the uploaded data treatment, read this link. After completion of the search, the result is returned as an HTML report to the browser.
• If you include results from Ariadne in a publication, please cite Ariadne paper (Nakayama et al., Nucleic Acids Res. 2009 37:e47).
• More about Ariadne
  1. Introduction
  2. Usage of Ariadne
  3. Demo search

MS/MS search

Although using Ariadne search needs user ID, you can try to search as 'guest' ID (password 'guest'). The limitations of 'guest' are: (1)MS/MS data (upto 5MB in peak-list-file size), (2)database (link to currently available databases) and (3)results (browsing the result only just after the search). To search MS/MS data against large databases such as human genome or to browse search results afterward, the resistered user ID is necessary. Contact us via e-mail to get your user ID.

Also, you can just browse demo search without user ID. -> Demo search

Browse search log

User ID is needed to browse 'Search log' page.

Tools for RNA MS

● RNA Mass Calculator

  A utility for calculating mass values of a nucleotide, its metabolites, its RNase digests and their CID fragments from given sequence.

● RNA Mass Search

  A utility for finding RNase-cleaved nucleotides and/or RNA metabolites using given MWs from a given RNA sequence.

RNA and bioinformatics links