Name
Title | ||
|---|---|---|
The Stanford RNA Mapping Database for sharing and visualizing RNA structure mapping experiments |
Abstract | ||
|---|---|---|
We have established an RNA Mapping Database (RMDB) to enable a new generation of structural, thermodynamic, and kinetic studies from quantitative single-nucleotide-resolution RNA structure mapping (freely available at http://rmdb.stanford.edu). Chemical and enzymatic mapping is a rapid, robust, and widespread approach to RNA characterization. Since its recent coupling with high-throughput sequencing techniques, accelerated software pipelines, and large-scale mutagenesis, the volume of mapping data has greatly increased, and there is a critical need for a database to enable sharing, visualization, and meta-analyses of these data. Through its on-line front-end, the RMDB allows users to explore single-nucleotide-resolution chemical accessibility data in heat-map, bar-graph, and colored secondary structure graphics; to leverage these data to generate secondary structure hypotheses; and to download the data in standardized and computer-friendly files, including the RDAT and community-consensus SNRNASM formats. At the time of writing, the database houses 38 entries, describing 2659 RNA sequences and comprising 355,084 data points, and is growing rapidly. |
Year | Venue | Keywords |
|---|---|---|
2011 | CoRR | secondary structure,kinetics,nucleotides,software pipelining,high throughput,thermodynamics,front end,rna structure |
Field | DocType | Volume |
Data point,Graphics,RNA,Nucleic acid structure,Visualization,Data mapping,Computer science,Software,Bioinformatics,Database | Journal | abs/1110.0235 |
Citations | PageRank | References |
0 | 0.34 | 2 |
Authors | ||
3 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| Pablo Cordero | 1 | 11 | 1.78 |
| Julius B Lucks | 2 | 14 | 1.54 |
| Rhiju Das | 3 | 37 | 7.66 |