Article Figures & Data
Figures
- Figure 1.
Connections between Biological Entities at Different Levels of Analysis.
- Figure 2.
ePlant’s Module Viewers (Each Displaying Data for ABI3), Illustrating ePlant’s Hierarchy of Scale.
To see detail, view the online version. World eFP Viewer (A), Plant eFP Viewer (B), Tissue and Experiment eFP Viewer (C), Subcellular eFP Viewer (D), Chromosome Viewer (E), Interaction Viewer (F), Molecule Viewer (G), and Sequence Viewer (H). High-resolution vector graphics are available for most views (see example in Supplemental File 1). ePlant outputs are freely usable via an “open” license.
- Figure 3.
ePlant System Design and User Interface.
(A) ePlant system architecture.
(B) ePlant user interface showing the expression pattern of ABI3 with the Plant eFP Viewer. See detail in online version of figure.
- Figure 4.
ePlant Views Providing Information from Araport.
(A) ePlant Gene Information Viewer.
(B) ePlant Publications Viewer.
- Figure 5.
The Heat Map Viewer Showing 350+ Expression Level Samples for 25 Genes Identified with the Expression Angler for Having Similar Expression Patterns to ABI3 (At3g24650).
The “global” color gradient is selected, making it easy to see the variability in the expression levels of the various genes.
- Figure 6.
Six of More Than 20 Views from the Tissue and Experiment eFP Viewer.
Each view displays expression levels for ABI3 with the “custom” color gradient setting, with red = 100 expression units: root (A), guard and mesophyll cells (B), microgametogenesis (C), biotic stress: Pseudomonas syringae (D), abiotic stress (E), and pollen germination (F). Some views are truncated for display here; see online version of the figure to be able to see detail. ePlant outputs for all views may be downloaded as high-resolution vector graphic files and are freely available for use by any researcher under an “open” license.
- Figure 7.
The Subcellular Localization eFP Viewer.
(A) ABI3 is mostly localized in the nucleus.
(B) An inset of a high-resolution version of the same image.
- Figure 8.
ePlant Interaction and Molecule Viewers.
(A) Protein and DNA Interaction Viewer showing interactions for At1g54330.
(B) Molecule Viewer showing the transcription factor ABI3’s Phyre2-predicted partial 3D structure with its DNA binding site highlighted in blue and two nonsynonymous changes (from a web service provided by the 1001 Proteomes site) highlighted in green. Changes of higher frequency are denoted by larger, redder pins above the sequence below.
Tables
View Data Source Abiotic stress Kilian et al. (2007) Biotic stress: Botrytis cinerea AtGenExpress initiative Biotic stress: Elicitors AtGenExpress initiative Biotic stress: Erysiphe orontii AtGenExpress initiative Biotic stress: Hyaloperonospora arabidopsidis Wang et al. (2011) Biotic stress: Myzus persicaere Couldridge et al. (2007) Biotic stress: Phytophthora infestans AtGenExpress initiative Biotic stress: Pseudomonas syringae AtGenExpress initiative Chemical Goda et al. (2008) Guard cell: meristemoids Pillitteri et al. (2011) Guard cell: mutant and wild-type guard cell ABA response Pandey et al. (2010) Guard cell: suspension cell ABA response with ROS scavenger Böhmer and Schroeder (2011) Tissue specific: embryo development Casson et al. (2005) Tissue specific: guard and mesophyll cells Yang et al. (2008) Tissue specific: microgametogenesis Honys and Twell (2004) Tissue specific: pollen germination Qin et al. (2009) Tissue specific: root Birnbaum et al. (2003); Nawy et al. (2005) Tissue specific: shoot apical meristem Yadav et al. (2009) Tissue specific: stem epidermis Suh et al. (2005) Tissue specific: stigma and ovaries Swanson et al. (2005) Tissue specific: trichomes Gilding and Marks (2010); Marks et al. (2009) Tissue specific: xylem and cork NASCArrays experiment #92
Author Profile
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Supplemental Data
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