… The graph orientation problem calls for orienting the edges of an undirected graph so as to
… a common preprocessing step, in which the input graph is reduced to a tree by repeatedly …

… An overview of the related work on bioinformatics methods for Protein-Protein Interaction (PPI),
such as: in-vivo, invitro, and in-silico is described in this section. The task of orientation is …

… undirected protein interaction networks, the algorithms we present are applicable to other
biological network orientation problems as well and can also be used with mixed graphs, …

… for PPI network orientation. Our method first generates a set of proximity scores between
a protein interaction and sets of cause and effect proteins using a network propagation …

… protein-protein interactions in yeast and measure our performance using edges with known
orientations. … For a comprehensive discussion of the various kinds of graph orientations, we …

… problem, which allows its exact solution in seconds on current networks. We apply our
algorithm to orient protein–protein interaction networks in yeast and compare it with two state-of-…

… between homologues associate in multiple orientations (24). Thus, further information on …
In Figure 6 , we show different template structures for use depending on the actual modeling …

… We consider a graph orientation problem arising in the study of biological networks. Given
an … To this end, we used a yeast protein-protein interaction (PPI) network consisting of 15,147 …

… In this work, we propose the Orientation-Aware Graph Neural Networks (OAGNNs) to better
… characteristics in protein structure (eg inner-residue torsion angles, inter-residue orientations)…

… protein interaction networks for whole organisms. Large-scale studies have identified hundreds
of potentially interacting proteins … differences in the relative orientations of the interacting …