Comparative Secondary Structure Prediction
Sequence covariation methods rely on the existence of a data set composed of multiple homologous RNA sequences with related but dissimilar sequences. These methods analyze the covariation of individual base sites in evolution; maintenance at two widely separated sites of a pair of base-pairing nucleotides indicates the presence of a structurally required hydrogen bond between those positions. The general problem of pseudoknot prediction has been shown to be NP-complete.
In general, the problem of alignment and consensus structure prediction are closely related. Three different approaches to the prediction of consensus structures can be distinguished:
- Folding of alignment
- Simultaneous sequence alignment and folding
- Alignment of predicted structures
Read more about this topic: Nucleic Acid Structure Prediction
Famous quotes containing the words comparative, secondary, structure and/or prediction:
“The utmost familiarity with dead streams, or with the ocean, would not prepare a man for this peculiar navigation; and the most skillful boatman anywhere else would here be obliged to take out his boat and carry round a hundred times, still with great risk, as well as delay, where the practiced batteau-man poles up with comparative ease and safety.”
—Henry David Thoreau (1817–1862)
“Scientific reason, with its strict conscience, its lack of prejudice, and its determination to question every result again the moment it might lead to the least intellectual advantage, does in an area of secondary interest what we ought to be doing with the basic questions of life.”
—Robert Musil (1880–1942)
“One theme links together these new proposals for family policy—the idea that the family is exceedingly durable. Changes in structure and function and individual roles are not to be confused with the collapse of the family. Families remain more important in the lives of children than other institutions. Family ties are stronger and more vital than many of us imagine in the perennial atmosphere of crisis surrounding the subject.”
—Joseph Featherstone (20th century)
“Recent studies that have investigated maternal satisfaction have found this to be a better prediction of mother-child interaction than work status alone. More important for the overall quality of interaction with their children than simply whether the mother works or not, these studies suggest, is how satisfied the mother is with her role as worker or homemaker. Satisfied women are consistently more warm, involved, playful, stimulating and effective with their children than unsatisfied women.”
—Alison Clarke-Stewart (20th century)