Then, applying the above-discussed strategy for determining horizontal gene transfer direction (see function find_ direction), we assigned directions to all obtained gene transfer branches.
We found a significant reaction time difference in assigning direction for rightward (693.8 ms) vs. leftward (746.1 ms) photographs, t 5,1) = 4.12, p<0.01.
The effect of pet ownership on human health has been studied on a number of occasions but has been somewhat inconclusive due to the difficulties in studying such a complex relationship and assigning direction of causation [ 1].
Gandham et al.[13] designed a two-phase approach which first computes a valid edge coloring and then assigns directions for all edges to avoid interference.
However, network analysis could also be applied to reviews and meta-analyzes, notably by assigning directions and signs to edges.
Simply, one starts at some randomly selected node and explores the graph as far as possible along each branch before backtracking, assigning directions as the graph is traversed.
After a better skeleton is obtained, the second phase of the original PC algorithm can be applied to partially assign directions.
In the BioGRID experiments, we also experimentally tried assigning directions to some of the KEGG edges as well, as in the method of Gitter et al. (2011) (see Methods section).
Unfortunately, the generalization to undirected graphs with cycles, such as the SNP networks we consider, requires randomly assigning directions to edges and pruning those in cycles without any biological justification.
When a text-mining discrepancy was found, we assigned the direction of modulation, when possible, based on consensus in the autophagy field, which usually reflected the direction of modulation that occurs under nutrient-replete conditions.
