Tools for the automatic identification and classification of RNA base pairs. - Huanwang Yang; Fabrice Jossinet; Neocles Leontis; Li Chen 022; John D. Westbrook; Helen M. Berman; Eric Westhof (Nucleic Acids Res., 2003)

Ribostral: an RNA 3D alignment analyzer and viewer based on basepair isostericities. - Ali Mokdad; Neocles Leontis (Bioinform., 2006)

R3D Align: global pairwise alignment of RNA 3D structures using local superpositions. - Ryan R. Rahrig; Neocles Leontis; Craig L. Zirbel (Bioinform., 2010)

The RNA Ontology (RNAO): An ontology for integrating RNA sequence and structure data. - Robert Hoehndorf; Colin R. Batchelor; Thomas Bittner; Michel Dumontier; Karen Eilbeck; Rob Knight 001; Chris Mungall; Jane S. Richardson; Jesse Stombaugh; Eric Westhof; Craig L. Zirbel; Neocles Leontis (Appl. Ontology, 2011)

WebFR3D - a server for finding, aligning and analyzing recurrent RNA 3D motifs. - Anton I. Petrov; Craig L. Zirbel; Neocles Leontis (Nucleic Acids Res., 2011)

R3D Align web server for global nucleotide to nucleotide alignments of RNA 3D structures. - Ryan R. Rahrig; Anton I. Petrov; Neocles Leontis; Craig L. Zirbel (Nucleic Acids Res., 2013)

The Nucleic Acid Database: new features and capabilities. - Buvaneswari Coimbatore Narayanan; John D. Westbrook; Saheli Ghosh; Anton I. Petrov; Blake A. Sweeney; Craig L. Zirbel; Neocles Leontis; Helen M. Berman (Nucleic Acids Res., 2014)

R3D-2-MSA: the RNA 3D structure-to-multiple sequence alignment server. - Jamie J. Cannone; Blake A. Sweeney; Anton I. Petrov; Robin Ray Gutell; Craig L. Zirbel; Neocles Leontis (Nucleic Acids Res., 2015)

JAR3D Webserver: Scoring and aligning RNA loop sequences to known 3D motifs. - James Roll; Craig L. Zirbel; Blake A. Sweeney; Anton I. Petrov; Neocles Leontis (Nucleic Acids Res., 2016)