Sentence examples for biological networks were generated from inspiring English sources
Biological networks were generated using curated interactions in MetaCore v4.7 (GeneGo Inc., St . Joseph MI, USA).
The correlation profiles for biological networks were generated by comparing with 100 randomized counterparts.
Biological networks were generated by connecting the nodes (genes) and edges (type of regulation) based on Microcosm Database.
The differentially expressed proteins having ≥1.5 fold change were taken as input and biological network was generated using Pathway Architect module of GeneSpring version 12.6 (Agilent Biosystems, Santa Clara, CA).
As the main purpose of gene expression studies using microarrays is to reveal the underlying biological differences between groups, functional networks were generated using MetaCore.
For each network size, 100 replicate simulation networks were generated.
New networks were generated at each simulation.
aGlobal gene networks were generated via Weighted Gene Correlation Network Analysis (WGCNA) [ 37] and network properties were calculated using the Network Analyzer plugin [ 51] that was developed for Cytoscape [ 50]. b Identifies networks that have a topology similar to other biological networks and ranges from 0 - 1 [ 37]. cAverage shortest path length between two nodes.
Fifty simulated networks were generated from real PPI network for comparing network alignment methods.
For each network, 1000 random networks were generated conserving the degree sequence of the original network.
Sample-specific regulation networks are generated by overlaying sample-specific differentially expressed genes of individual samples and their gene-activity status on top of the known biological network (step 3 Figure 1).
