Name
Title | ||
|---|---|---|
Semidefinite facial reduction and rigid cluster elastic network interpolation of protein structures |
Abstract | ||
|---|---|---|
“Elastic network interpolation (ENI)” generates a series of transitional conformations between two protein conformations by interpolating inter-atomic distances. A group of atoms that maintain their inter-atomic distances while moving concurrently in a protein is known as a rigid cluster; “rigid cluster ENI” is the interpolation of the rotations and translations of rigid clusters. Rank 3 positive semidefinite (PSD) matrix manifolds have faces that are defined by these rigid clusters. This facial structure strongly suggests that these matrix manifolds are a natural choice for modelling rigid cluster transitions. In this paper, we show that rigid cluster ENI can be formulated as a facially reduced rank 3 PSD matrix manifold optimization problem. |
Year | DOI | Venue |
|---|---|---|
2016 | 10.1109/BIBM.2016.7822506 | 2016 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) |
Keywords | Field | DocType |
coarse grain,elastic network model,Euclidean distance matrix,facial reduction,Gram matrix,positive semidefinite matrix manifold,protein structure,Riemannian manifold | Cluster (physics),Mathematical analysis,Matrix (mathematics),Interpolation,Artificial intelligence,Geometry,Optimization problem,Manifold,Positive-definite matrix,Symmetric matrix,Potential energy,Mathematics,Machine learning | Conference |
ISSN | ISBN | Citations |
2156-1125 | 978-1-5090-1612-9 | 0 |
PageRank | References | Authors |
0.34 | 3 | 3 |
Name | Order | Citations | PageRank |
|---|---|---|---|
| Xiao-Bo Li | 1 | 0 | 0.68 |
| F. J. Burkowski | 2 | 255 | 88.69 |
| Henry Wolkowicz | 3 | 1444 | 260.72 |