This is a special issue of PNAS from April 2004, now freely available.

Here are a few papers of note:

Coauthorship networks and patterns of scientific collaboration
From paragraph to graph: Latent semantic analysis for information visualization
A method for finding communities of related genes
Tracking evolving communities in large linked networks
Traffic-based feedback on the web

[ Awesome... i'll definitely be spending some time with this over the weekend... -k]

Mapping Knowledge Domains