RNAbor: a web server for RNA structural neighbors.

@article{citeulike:1357050, abstract = {RNAbor provides a new tool for researchers in the biological and related sciences to explore important aspects of RNA secondary structure and folding pathways. RNAbor computes statistics concerning delta-neighbors of a given input RNA sequence and structure (the structure can, for example, be the minimum free energy (MFE) structure). A delta-neighbor is a structure that differs from the input structure by exactly delta base pairs, that is, it can be obtained from the input structure by adding and/or removing exactly delta base pairs. For each distance delta RNAbor computes the density of delta-neighbors, the number of delta-neighbors, and the MFE structure, or MFE (delta) structure, among all delta-neighbors. RNAbor can be used to study possible folding pathways, to determine alternate low-energy structures, to predict potential nucleation sites and to explore structural neighbors of an intermediate, biologically active structure. The web server is available at http://bioinformatics.bc.edu/clotelab/RNAbor.}, address = {Linnaeus Centre for Bioinformatics, Uppsala University, 75124 Uppsala, Sweden, School of Computing Sciences, University of East Anglia, Norwich, NR4 7TJ, UK and Department of Biology, Boston College, Chestnut Hill, MA 02467, USA.}, author = {Freyhult, Eva and Moulton, Vincent and Clote, Peter }, citeulike-article-id = {1357050}, issn = {1362-4962}, journal = {Nucleic Acids Res}, keywords = {rna, secondary\_structure, sequence-structure, server}, month = {May}, posted-at = {2007-06-04 10:14:23}, priority = {2}, title = {RNAbor: a web server for RNA structural neighbors.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/17526527}, year = {2007} }

TY - JOUR ID - citeulike:1357050 L3 - citeulike-article-id:1357050 TI - RNAbor: a web server for RNA structural neighbors. JF - Nucleic Acids Res AD - Linnaeus Centre for Bioinformatics, Uppsala University, 75124 Uppsala, Sweden, School of Computing Sciences, University of East Anglia, Norwich, NR4 7TJ, UK and Department of Biology, Boston College, Chestnut Hill, MA 02467, USA. SN - 1362-4962 N2 - RNAbor provides a new tool for researchers in the biological and related sciences to explore important aspects of RNA secondary structure and folding pathways. RNAbor computes statistics concerning delta-neighbors of a given input RNA sequence and structure (the structure can, for example, be the minimum free energy (MFE) structure). A delta-neighbor is a structure that differs from the input structure by exactly delta base pairs, that is, it can be obtained from the input structure by adding and/or removing exactly delta base pairs. For each distance delta RNAbor computes the density of delta-neighbors, the number of delta-neighbors, and the MFE structure, or MFE (delta) structure, among all delta-neighbors. RNAbor can be used to study possible folding pathways, to determine alternate low-energy structures, to predict potential nucleation sites and to explore structural neighbors of an intermediate, biologically active structure. The web server is available at http://bioinformatics.bc.edu/clotelab/RNAbor. KW - rna KW - secondary_structure KW - sequence-structure KW - server AU - Freyhult, Eva AU - Moulton, Vincent AU - Clote, Peter PY - 2007/05/25/ UR - http://view.ncbi.nlm.nih.gov/pubmed/17526527 ER -