The SFA approach identifies domain-specific and domain-independent features and uses the domain-independent features as a bridge to build a bipartite graph modeling the co-occurrence relationship between the domain-independent and domain-specific features.
SFA uses some DI conceptual abstractions for workflow steps (i.e. Workflow motifs) as a bridge to construct a bipartite graph to model the co-occurrence relationship between DS tags and DI ones (U matrix).
The details are given in Algorithm 2. The SRL is also built upon the metadata set and uses common association rules algorithm to mining the co-occurrence relationship of keywords.
Faust et al. recently built a gut microbiota network with co-occurrence relationship using Spearman rank correlation method.
We then sum the matrices over all the regions to get one matrix that represents the co-occurrence relationship between C and O.
In Figure 5, we use an undirected edge to represent the co-occurrence relationship between entities and this edge also represents a bidirectional edge when counting in- and out-degree of a node in the undirected network.
Faust, K. et al. Microbial co-occurrence relationships in the human microbiome.
Faust K, Sathirapongsasuti JF, Izard J, Segata N, Gevers D, Raes J, et al. Microbial co-occurrence relationships in the human microbiome.
The results show that life cycle assessment is the keyword with the greatest frequency of occurrence and design is the keyword that has the highest number of co-occurrence relationships with other keywords in the 398 papers.
For example, Chloroflexi showed significant and strong co-occurrence relationships (O/R > 3, P < 0.01) with many phyla (Acidobacteria, Actinobacteria, Cyanobacteria, Gemmatimonadetes, Planctomycetes, Betaproteobacteria and unclassified) in the bacterioplankton community of XKB, but showed no significant co-occurrence patterns in MLB.
The proposed platform consists of two networks: the one is constructed based upon the statistical (co-occurrence) relationships involved in the set of annotated data; and the other is extracted from the causal relationships among the annotated data derived by means of the DEMATEL method.
