Feb 13, 2015 12:57 PM: Upgrading the BGSU RNA website
Following the recent switch to mmCIF as the main format for 3D structural data distribution, we are upgrading RNA 3D Hub to take advantage of the new data. While this work is in progress, we paused the automatic updates while keeping all previous releases and annotations available.
Oct 14, 2012 12:50 PM: WebFR3D Update
This week we are rolling out an update to WebFR3D, which includes several enhancements.
May 29, 2012 12:46 PM: Summer 2012 Newsletter is Available
Today we release our first newsletter describing our main projects. We will also distribute it at the RNA Society meeting in Ann Arbor.
Oct 1, 2014 12:56 PM: FR3D Works on Octave
The motif search tool FR3D has been revised to work better with Octave, which runs Matlab code in much the same way that Matlab does.
Oct 1, 2014 12:55 PM: RNA 3D Structure Course Published Online
Prof. Zirbel taught a workshop course on RNA 3D structure while on sabbatical visiting Ivo Hofacker’s group at the University of Vienna. The contents of the course are available online at this link. It introduces the RNA nucleotides, RNA basepairs including non-Watson-Crick basepairs, RNA base stacking, base-phosphate interactions, anti and syn conformation of the backbone, RNA motifs, sequence variability in RNA motifs, and the rudiments of motif searching using FR3D.
Oct 1, 2014 12:55 PM: The Nucleic Acid Batabase: New Features and Capabilities
The paper describing the Rutgers-BGSU collaboration to update NDB has been published.
Sep 23, 2013 12:53 PM: RNA 3D Motif Atlas Paper has been Published
The paper describing the RNA 3D Motif Atlas has been published in RNA.
May 29, 2013 12:52 PM: R3D Align Paper is Available Online
The final version of our new paper describing R3D Align webserver has been published by Nucleic Acids Research. The paper appeared in the NAR Web Server Issue in June 2013.
Oct 20, 2012 12:51 PM: Introduction to RNA 3D Hub
Take a look at the RNA 3D Hub demo presented by Anton Petrov at the Rustbelt RNA Meeting on October 20, 2012.
Oct 16, 2012 12:51 PM: BGSU RNA Team in the News
A news article about BGSU RNA team was featured on BGSU website.
Sep 18, 2012 12:49 PM: New Features in RNA 3D Hub (September 2012)
This week we are introducing RNA Structure Atlas, which provides a new way of browsing the RNA 3D Hub by PDB.
Aug 23, 2012 12:47 PM: New Features in RNA 3D Hub (August 2012)
RNA 3D Hub has been updated with new functionality making it easier to explore the RNA 3D Motif Atlas and the Loop Atlas.
May 7, 2012 12:45 PM: Using New Tools for Predicting 3D Structural Motifs
This session covers prediction of RNA 3D structure from sequence. Participants will learn about new resources which organize RNA 3D structures and known RNA motifs. Participants will get RNA sequences, fold them using standard programs, and use a new tool called JAR3D to predict the 3D structures of the internal and hairpin loops.
Nov 7, 2011 12:43 PM: RNA Base Triple Paper is Online
Base triples are recurrent clusters of three RNA nucleobases interacting edge-to-edge by hydrogen bonding. We find that the central base in almost all triples forms base pairs with the other two bases of the triple, providing a natural way to geometrically classify base triples. Given 12 geometric base pair families defined by the Leontis–Westhof nomenclature, combinatoric enumeration predicts 108 potential geometric base triple families.
Apr 7, 2011 12:42 PM: WebFR3D Paper is Online
WebFR3D paper is accepted for publication in the 2011 Webserver Special Issue of Nucleic Acids Research. You can get early access here.