1. Dense Module Enumeration in Biological Networks
Koji Tsuda and Elisabeth Georgii
2. Discovering Interacting Domains and Motifs in Protein-Protein Interactions
Hugo Willy, Wing-Kin Sung, and See-Kiong Ng.
3. Global Alignment of Protein-Protein Interaction Networks
Misael Mongiov__ Roded Sharan
4. Structure Learning for Bayesian Networks as Models of Biological Networks
Antti Larjo, Ilya Shmulevich, and Harri L]ahdesm]aki
5. Supervised Inference of Gene Regulatory Networks from Positive Examples
Fantine Mordelet and Jean-Phillippe Vert
6. Mining Regulatory Network Connections by Ranking Transcription Factor Target Genes using Time Series Expression Data
Annti Honkela, Magnus Rattray, and Neil D. Lawrence
7. Identifying Pathways of Co-ordinated Gene Expression
Timothy Hancock, Ichigaku Takigawa, and Hiroshi Mamitsuka
8. Mining Frequent Subtrees in Glcan Data using the RINGS Glycan Miner Tool
Kiyoko Flora Aoki-Kinoshita
9. Chemogenomic Approaches to Infer Drug-target Interaction Networks
Yoshihiro Yamanishi
10. Localization Prediction and Structure-based in Silico Analysis of Bacterial Proteins- with Emphasis on Outer Membrane Proteins
Kenichiro Imai, Sikander Hayat, Noriyuki Sakiyama, Naoya Fujita, Kentaro Tomii, Arne Elofsson, and Paul Horton
11. Analysis Strategy of Protein-Protein Interaction Networks
Zhenjun Hu
12. Data Mining in the MetaCyc Family of Pathway Databases
Peter D. Karp, Suzanne Paley, and Tomer Altman
13. Gene Set/Pathway Enrichment Analysis
Jui-Hung Hung
14. Construction of Functional Linkage Gene Networks by Data Integration
Bolan Linghu, Eric A. Franzosa, Yu Xia
15. Genome-Wide Association Studies
Tun-Hsiang Yang, Mark Kon, Charles DeLisi
16. Viral Genome Analysis and Knowledge Management
Carla Kuiken, Hyejin Yoon, Werner Abfalterer, Brian Gaschen, Chienchi Lo, Bette Korber
17. Molecular Network Analysis of Diseases and Drugs in KEGGMinoru Kanehisa
