Bipartite network projection

Bipartite network projection is a method used to simplify complex relationships in types of networks called bipartite networks. Since the one-mode projection is always less informative than the original bipartite graph, an appropriate method for weighting network connections is often required. Optimal weighting methods reflect the nature of the specific network, conform to the designer's objectives, and aim at minimizing information loss. (One-mode projections simplify bipartite networks but often loses important details. To make up for this, it's important to use a good method for assigning weights to the connections. The best methods depend on the type of network, the goals of the analysis, and aim to keep as much original information as possible)

Background

Bipartite networks are a particular class of complex networks, whose nodes are divided into sets X and Y, and only connections between two nodes in different sets are allowed. For the convenience of directly showing the relation structure among a particular set of nodes, bipartite networks are usually compressed by one-mode projection. This means that the ensuing network contains nodes of only one of the two sets, and two X (or Y) nodes are connected only when they have at least one common neighboring Y (or X) node.

The simplest method involves projecting the bipartite network onto an unweighted network without the network topology or the frequency of sharing a connection to the elements of the opposing set. Since bipartite networks with largely different structures can have the same one-mode representation in this case, a lucid illustration of the original network topology usually requires using some weighting method.

Possible weighting methods

As per the designer's needs and the topological properties of the given network, several different weighting methods have been proposed. Since the redistribution of weights is found to have a strong effect on the community structure (especially in dense networks), the methodological choice must be made with care.

1. Simple weighting. Simple weighting means that edges are weighted directly by the number of times the common association is repeated. (This is the method applied in the attached graph on the right.) This approach works fine for a wide range of settings, such as molecular gastronomy or most social networks. However, it can be misleading if the marginal impact of one additional association is not fixed but dependent on some characteristics of the network (e.g., on the original weight between the respective nodes). This can be the case, for example, in scientific collaborations as pointed out by Fan et al..
2. Hyperbolic weighting. In the common case of decreasing marginal contribution of additional links to a node, using simple weighting might not be very illuminating. For example, in scientific collaboration networks, two scientists whose names appear on a paper with many other coauthors are expected to know one another less than two who were the sole authors of a paper. To account for this so-called saturation effect, it has been proposed to weight edges inversely according to the number of common affiliations in the neighboring set. This is most easily achieved by introducing a scaling factor 1/(n - 1) onto the simple count, which weakens the link between nodes with more popular common matches.
3. Weighting based on resource allocation. With simple and hyperbolic weighting, the projected adjacency matrix is always set to be symmetrical, which implies that a link between two projected nodes carries the same weight for both vertices. Moreover, information contained by edges whose "target" nodes are of degree 1 in the original network will be lost in the projection, which can have grievous consequences in some real networks with a lot of independent edge sets. To overcome these shortcomings, Zhou et al. has proposed a weighting method that is based on assuming that a certain amount of resource is associated with each node in the projection, and the directional weight w_ij represents the proportion of the resource that node j would like to distribute to node i. Resource allocation is based on the bipartite graph, involves equal distribution across neighbors and consists of two steps: first from the projected set to the non-projected set, and then back. Numerical simulations indicate that this projecting method can perform remarkably than some widely used methods (such as collaborative filtering) for personal recommendation purposes.

Backbones of bipartite projections

Each weighting method yields a weighted unipartite or one-mode network, where the weights reflect the extent to which two nodes shared common neighbors in the original bipartite network. The values of these weights depend on the degrees of the two sets of nodes in the original bipartite network. For example, in a co-authorship network the number of observed co-authorship depends on (1) the number of papers each author wrote and (2) the number of authors on each paper. Backbone algorithms designed for bipartite projections (in contrast to other weighted network backbone algorithms such as the disparity filter) use this information from the original bipartite network to identify statistically significantly large (or small) weights in the projection. When only the edges with statistically significant weights are retained, these algorithms yield an unweighted and typically sparse "backbone" network that can be more informative to analyze and visualize.

Some notable applications

• Flavor network and the principles of food pairing
• Scientific collaboration network
• Corporate elite network
• Human disease network
• US Congress co-sponsorship network

References