Send to

Choose Destination
Bioinformatics. 2019 Aug 2. pii: btz611. doi: 10.1093/bioinformatics/btz611. [Epub ahead of print]

RAG-Web: RNA Structure Prediction/Design using RNA-As-Graphs.

Author information

Department of Chemistry, New York University, 1021 Silver, 100 Washington Square East, New York, NY, USA.
Department of Chemistry, Smith College, Northampton, MA, USA.
Courant Institute of Mathematical Sciences, New York University, 251 Mercer Street, New York, NY, USA.
NYU-ECNU Center for Computational Chemistry at New York University Shanghai, Room 340, Geography Building, North Zhongshan Road, Shanghai, China.



We launch a webserver for RNA structure prediction and design corresponding to tools developed using our RNA-As-Graphs (RAG) approach. RAG uses coarse-grained tree graphs to represent RNA secondary structure, allowing the application of graph theory to analyze and advance RNA structure discovery. Our webserver consists of three modules: (a) RAG Sampler: samples tree graph topologies from an RNA secondary structure to predict corresponding tertiary topologies, (b) RAG Builder: builds three-dimensional atomic models from candidate graphs generated by RAG Sampler, and (c) RAG Designer: designs sequences that fold onto novel RNA motifs (described by tree graph topologies). Results analyses are performed for further assessment/selection. The Results page provides links to download results and indicates possible errors encountered. RAG-Web offers a user-friendly interface to utilize our RAG software suite to predict and design RNA structures and sequences.


The webserver is freely available online at:


Supplementary Data, along with usage guidelines, are available at Bioinformatics online.

Supplemental Content

Full text links

Icon for Silverchair Information Systems
Loading ...
Support Center