The solution of this task is approached by Constructive Nonlinear Dynamics (CNLD), an optimization based method developed by the authors in recent years.
ARACNE is an information-theory based method developed to reconstruct gene regulatory networks in mammalian cellular context using gene expression profiles [ 25].
The network-based methods, developed in partnership with Gene-Go-Thomson Reuters 22– 24, predicted activity of drug targets is based on topological analysis.
Here, we present a review on such methods, with a special focus on knowledge-based methods developed in our laboratory: LigandRNA a scoring function for the prediction of RNA small molecule interactions and MetalionRNA a predictor of metal ions-binding sites in RNA structures.
Vocabulary-based methods developed in this investigation worked on similar assumptions that external vocabularies had been implemented and used properly in the different systems.
Metadata-based methods developed in this investigation relied on the assumptions that certain systems were reliable, persistent sources of truth for specific metadata elements, that the copies of metadata elements in external systems were faithful representations of the original, and that these copies had been properly assigned as attributes of entities in those systems.
This study was part of a larger study identifying alcohol-related violence hot spots in the Cambridge area, based on methods developed in Cardiff [2].
Spectrophotometric measurements of seawater pH, based on methods developed in the late 1980s, are simple, rapid, and precise.
However, the data collection is based on methods developed in Anthropology and thematic content analysis is used to identify subject matters most common in the interviews.
In the realignment process, image reconstruction was based on an identical reconstruction method developed in-house.
