spacer

Human Genome Project Information  •  Genomic Science  •  Microbial Genome Program  •  sitemap   •  home
Image Use and Credits   •  Instructions for Downloading Graphics  •  Resolutions Explained

spacer

Item Detail     |     back to gallery

spacer
 

thumbnail

view full-size image

 
spacer

Title :

Multinetwork Analysis of Arabidopsis Genome

Description :

(A) Networks in their simplest forms are made up of “nodes” and the “edges” that connect them. (B) Various types of node connections can be displayed using colors and shapes that indicate different types of molecules and the relationships between them. (C) Multinetwork representation of Arabidopsis metabolic, regulatory, and predicted regulatory connections between genes, proteins, and metabolites (Gutiérrez et al. 2007; Gifford et al. 2006). Specifically, the data used to draw edges comes from (i) information about metabolic reactions and pathways from the KEGG and AraCyc databases; (ii) known DNA : protein regulatory interactions from the Transfac and AGRIS databases; (iii) predicted protein : protein interactions based on homology to experimentally verified protein : protein interactions in Saccharomyces cerevisiae, Drosophila melanogaster, and Caenorhabditis elegans using the “Interolog” approach (Gutiérrez et al. 2007); (iv) predicted relationships between microRNAs and their targets (provided by Pam Green and Blake Meyers, Delaware Biotechnology Institute, University of Delaware, USA); and (v) known interactions between genes or proteins gleaned from published literature using the text-mining tool GeneWays (A. Rhetzsky, University of Chicago). The Cytoscape software is used to visualize the multinetwork in an interactive way (Shannon et al. 2003); (vi) the multinetwork can then be queried to find regulatory subnetworks and interactions between a subset of genes. [Source: Gifford, M. L., R. A. Gutiérrez, and G. M. Coruzzi. 2006. “Modeling the Virtual Plant: A Systems Approach to Nitrogen–Regulatory Gene Networks,” Essay 12.2, Chapter 12: Assimilation of mineral nutrients (http://4e.plantphys.net/ article.php?ch=12&id=352). In A Companion to Plant Physiology, Fourth Edition by L. Taiz and E. Zeiger. Sinauer Associates, Inc., Publishers, Sunderland, Mass. (see also http://www.virtualplant.org and Gutiérrez et al. 2007).]

Citation :

U.S. DOE. 2008. Carbon Cycling and Biosequestration: Report from the March 2008 Workshop, DOE/SC-108, U.S. Department of Energy Office of Science (http://genomicscience.energy.gov/carboncycle/).

Credit or Source :

(see description above)

Medium Res :

Medium-Resolution Image

Hi Res :

High-Resolution Image


Image Use and Credits
Almost all the images on these pages are original graphics created by the U.S. Department of Energy Genome Program's Genome Management Information System (GMIS). You will recognize GMIS images by their credit lines. Permission to use these graphics is not needed, but please credit the U.S. Department of Energy Genome Programs and the website http://genomics.energy.gov. All other images were provided by third parties and not created by the U.S. Department of Energy. You must contact the persons listed in the credit lines before using those images.

Please contact us with questions or feedback.

Webmaster * Disclaimer

This image gallery is a special feature of the genomics.energy.gov website administered by the Genome Management Information System for the Office of Biological and Environmental Research of the U.S. Department of Energy Office of Science.

Base url: http://genomics.energy.gov