Abstract </head> <body text="#000000" bgcolor="#FFFFFF" link="#0000EF" vlink="#CF30CF" alink="#FF0000" nosave> <br> <center><h2> Consensus eigengene networks: studying relationships between gene co-expression modules across networks </h2> <br> <h2> Peter Langfelder </h2> <h3> (UC Los Angeles) </h3> </center> <br> Gene co-expression networks tend to exhibit modular structure grouping together genes responsible for individual biological processes and functions. In this sense, the modules provide a bridge between individual genes and a systems-level view of the organism. The information captured by modules in a co-expression network is far richer than a simple list of genes belonging to each of the detected modules. The modules together form a system in which the relationships between the modules carry interesting, biologically meaningful information. In most hitherto co-expression network analyses, however, these module--module relationships went essentially unexplored. <p> We present the following new results: (1) A definition of eigengene networks in gene co-expression data that can be used to explore relationships of modules in co-expressed genes. Our networks are undirected, but the links retain the sign of the co-expression relationship between the respective nodes. (2) Simple and efficient approaches to detect consensus modules, i.e., modules that are shared between two or more different networks. (3) Visual as well as quantitative methods for studying module relationships within a network as well as the differences between eigengene networks. <p> As examples, we apply our methods to several recently published empirical microarray datasets. We detect and analyze consensus modules in human and chimpanzee brains and relate them to the brain regions in which they are most differentially expressed. In the second application, we analyze consensus modules across data from four different female mouse tissues. <br><br><br> <a href="index.html">Back to main page</a><br><br> <hr> <p><br><br>  <script type="text/javascript"> var sc_project=2800657; var sc_invisible=0; var sc_partition=28; var sc_security="dd1187b0"; </script> <script type="text/javascript" src="http://www.statcounter.com/counter/counter_xhtml.js"></script><noscript><div class="statcounter"><a class="statcounter" href="http://www.statcounter.com/"><img class="statcounter" src="http://c29.statcounter.com/2800657/0/dd1187b0/0/" alt="free stats" /></a></div></noscript>  </body> </html>