Help:PathwayStyling

From WikiPathways

(Difference between revisions)
Jump to: navigation, search
(→WikiPathways in Cytoscape)
(tweaks to layout, links and intro text)
Line 1: Line 1:
-
=== WikiPathways in Cytoscape ===
+
== Publication-Quality Images via WikiPathways ==
-
The recommended default style of WikiPathways is optimized for clarity, data overlay and analysis, and therefor sometimes lacks the rich visual qualities of pathway figures in publications. However, because of it's flexibility, the WikiPathways format can be used in a number of analysis and visualization tools, where the content can be customized for specific purposes. Here we demonstrate how WikiPathways can be customized for creating publication-quality figures, by styling the pathways in Cytoscape. The pathways represented were created based on existing published figures. For each pathway, thumbnails for the original publication figure and the WikiPathways model are included as thumbnails.
+
A showcase of WikiPathways models styled in Cytoscape to produce publication-quality images that are comparable to original static figures. You can model and then style any biological process, starting from a published figure or your own research results.  
----
----
 +
=== NAD⁺ in aging, metabolism, and neurodegeneration ===
 +
(Verdin, ''Science'' 2015) [http://www.ncbi.nlm.nih.gov/pubmed/26785480 PubMed]
-
{|
 
-
|[[Image:NAD-biosynthetic-pathways_CS.png|500px|border]]
 
-
|}
 
{|
{|
-
|[[Image:WP3645_85725.png|thumb|WikiPathways]]
+
|[[Image:NAD-biosynthetic-pathways_CS.png|border|500px|WikiPathways in Cytoscape]]
-
|[[Image:NAD_publication.png|thumb|Original]]
+
|
 +
{|
 +
{{#imgLink:WP3645_85725.png|thumb|center|WikiPathways model|pathway|WP3645|WikiPathways model}}
 +
|-
 +
|[[Image:NAD_publication.png|thumb|Original figure]]
 +
|}
|}
|}
 +
 +
----
----
 +
=== Metabolic shifts toward glutamine regulate tumor growth, invasion and bioenergetics in ovarian cancer ===
 +
(Yang, ''Mol Syst Biol'' 2014) [http://www.ncbi.nlm.nih.gov/pubmed/24799285 PubMed]
{|
{|
-
  |[[Image:WP_Styling_Help_TCACycleCancer.png|600px|border]]
+
  |[[Image:WP_Styling_Help_TCACycleCancer.png|600px|border|WikiPathways in Cytoscape]]
-
|}
+
|
-
 
+
{|
{|
-
|[[Image:WP2868_78079.png|thumb|WikiPathways]]
+
|{{#imgLink:WP2868_78079.png|thumb|center|WikiPathways model|pathway|WP2868|WikiPathways model}}
-
|[[Image:TCACycleCancer_original.jpg|thumb|Original]]
+
|-
 +
|[[Image:TCACycleCancer_original.jpg|thumb|Original figure]]
 +
|}
|}
|}

Revision as of 21:35, 14 July 2016

Publication-Quality Images via WikiPathways

A showcase of WikiPathways models styled in Cytoscape to produce publication-quality images that are comparable to original static figures. You can model and then style any biological process, starting from a published figure or your own research results.

NAD⁺ in aging, metabolism, and neurodegeneration

(Verdin, Science 2015) PubMed


WikiPathways in Cytoscape
Original figure
Original figure


Metabolic shifts toward glutamine regulate tumor growth, invasion and bioenergetics in ovarian cancer

(Yang, Mol Syst Biol 2014) PubMed

WikiPathways in Cytoscape
Original figure
Original figure
Retrieved from "https://classic.wikipathways.org/index.php/Help:PathwayStyling"
Personal tools