In addition to energetically optimal structures, RNAs can fold into near energy suboptimal conformations that may be populated and play functional roles. The diversity of this structural ensemble can be estimated using a metric derived from the calculated RNA partition function: the ensemble diversity. In this report, 10 classes of functional RNAs were analyzed: the 5.8S and 5S rRNAs, ribozyme, RNase P, snoRNA, snRNA, SRP RNA, tmRNA, Vault RNA and Y RNA. Representative sequences from each class were mutagenized in two ways: firstly, all possible point mutations were generated and secondly, wild type sequences were randomized to generate multiple scrambled mutants. Compared to the mutants, the native RNA ensemble diversity was predicted to b...
BACKGROUND: RNA inverse folding is the problem of finding one or more sequences that fold into a use...
The origin of life is believed to have progressed through an RNA world, in which RNA acted as both g...
Thesis (Ph.D.)--University of Rochester. School of Medicine and Dentistry. Dept. of Biochemistry and...
Laboratory evolution of functional RNAs has applications in many areas of chemical and synthetic bio...
<p>Given the collection of base pairing probabilities over all locally optimal structures [resp. ov...
We present results of computer experiments that indicate that several RNAs for which the native stat...
RNA is usually classified as either structured or unstructured; however, neither category is adequat...
Structural elements in RNA molecules have a distinct nucleotide composition, which changes gradually...
RNA is a special type of molecule in the sense that it is an information carrier, and is also able t...
A detailed knowledge of the mapping between sequence and structure spaces in populations of RNA mole...
Noncoding RNAs (ncRNAs) are transcripts that do not code for protein but rather function as RNA in c...
Structural elements in RNA molecules have a dis-tinct nucleotide composition, which changes grad-ual...
The discovery of catalytic RNAs suggests that life emerged from an RNA molecule. However, the princi...
Abstract RNA has a myriad of biological roles in con-temporary life. We use the RNA paradigm for gen...
Many non-coding RNAs (ncRNAs) can fold into alternate native structures and perform different biolog...
BACKGROUND: RNA inverse folding is the problem of finding one or more sequences that fold into a use...
The origin of life is believed to have progressed through an RNA world, in which RNA acted as both g...
Thesis (Ph.D.)--University of Rochester. School of Medicine and Dentistry. Dept. of Biochemistry and...
Laboratory evolution of functional RNAs has applications in many areas of chemical and synthetic bio...
<p>Given the collection of base pairing probabilities over all locally optimal structures [resp. ov...
We present results of computer experiments that indicate that several RNAs for which the native stat...
RNA is usually classified as either structured or unstructured; however, neither category is adequat...
Structural elements in RNA molecules have a distinct nucleotide composition, which changes gradually...
RNA is a special type of molecule in the sense that it is an information carrier, and is also able t...
A detailed knowledge of the mapping between sequence and structure spaces in populations of RNA mole...
Noncoding RNAs (ncRNAs) are transcripts that do not code for protein but rather function as RNA in c...
Structural elements in RNA molecules have a dis-tinct nucleotide composition, which changes grad-ual...
The discovery of catalytic RNAs suggests that life emerged from an RNA molecule. However, the princi...
Abstract RNA has a myriad of biological roles in con-temporary life. We use the RNA paradigm for gen...
Many non-coding RNAs (ncRNAs) can fold into alternate native structures and perform different biolog...
BACKGROUND: RNA inverse folding is the problem of finding one or more sequences that fold into a use...
The origin of life is believed to have progressed through an RNA world, in which RNA acted as both g...
Thesis (Ph.D.)--University of Rochester. School of Medicine and Dentistry. Dept. of Biochemistry and...