Bioinformatics And Graph Platforms Like "Powergraph" Or "Graphlab"

Question

[Farhad]

I am new to Bioinformatics, Graph Platforms like PowerGraph and GraphLab are introduced to process large scale, social and natural graphs, I'm looking for their usage in Bioinformatics, I appreciate your help in advance.

Answer 1

[Mikael Huss]

There could be a place for these in de novo sequence assembly, where the goal is basically to find a good path through a very large graph (like a de Bruijn graph or a string graph) describing sequence overlaps. I am not sure why I haven't seen any such implementations of assemblers. There is a Hadoop based assembler, Contrail, but GraphLab etc seem more naturally suited to the problem.

Of existing applications, I suppose things like predicting drug-target interactions are relevant.