A method called pyDockTET (tethered-docking) uses rigid-body docking to generate domain domain complexes that are scored by the electrostatic and desolvation energy terms, as well as a pseudo-energy term reflecting restraints from linker end-to-end distances; in this manner, near-native pair-wise domain poses are selected.
Each edge was assigned a weight equal to CS, the pair-wise domain co-occurrence score defined above.
A score thus obtained reflects the abundance of a particular pair-wise domain interaction, allowing the assessment of the reliability and the significance of the considered domain interaction.
We analyze the abundance and the pair-wise domain-domain co-occurrences of 25 well-documented CM domains in 5 model organisms: yeast, worm, fly, mouse and human.
Here, we analyze respectively, the abundance and the pair-wise domain-domain co-occurrences of 25 domains found in well-documented CM proteins in 5 model organisms: the yeast Saccharomyces cerevisiae, the worm Caenorhabditis elegans, the fly Drosophila melanogaster, the mouse Mus musculus and the human Homo sapiens.
Margallo-Balbás et al. [ 7] and Ren et al. [ 8] have reported methods using triangular surface meshes and ray-surface intersection calculations to propagate photons in a piece-wise-constant domain.
We introduce a multi-dimensional point-wise multi-domain hybrid Fourier-Continuation/WENO technique (FC WENO) that enables high-order and non-oscillatory solution of systems of nonlinear conservation laws, and essentially dispersionless, spectral, solution away from discontinuities, as well as mild CFL constraints for explicit time stepping schemes.
To find subsets of pair-wise correlating domains, which potentially reveal relating molecular functions in the genome, we applied Markov clustering algorithm (Enright et al. 2002).
For Ward-II and the ED, almost half of the scales changed as expected with varying domain wise results.
Although simulated BTCs at the system outlet are observed to be very similar for these various numerical methods, computed local (point-wise, inside the domain) BTCs can be very different.
In general, there has been a dynamic, lineage-wise expansion of domain architectures in plant lineages.
