(News)
Aiming to make our biological pathway knowledge more accessible, we've been offering for years the option to download the complete content of our knowledgebase as a PDF book. Following users feedbac ...
(News)
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Our PathwayBrowser now features advanced search capabilities powered by Solr to allow finding content throughout the whole knowledgebase. The user ...
(News)
Pathways in Reactome are curated in a generic cell and are agnostic to tissue types. However, different cell types have different functional requirements and consequently the underlying pathway activities ...
(Developers Guide)
The Reactome Pathway Diagram Viewer provides an intuitive means of viewing and interacting with pathway diagrams. Pathway diagrams represent the steps of a pathway as a series of interconnected molecular ...
(Developers Guide)
...
.frame
Introduction
This document provides a set of guidelines for developers on how to properly render Reactome pathway diagrams. Pathway Diagrams represent pathways as a series of connected molecular ...
(Uncategorised)
The pathway information files consist of tab-separated tables that provide information about Reactome pathway hierarchy:
The "Complete list of pathways" file maps the Reactome Stable identifier (ST_ID ...
(Developers Guide)
The Pathways Overview is a genome-wide, hierarchical visualization of Reactome pathways in a space-filling graph. Each node represents a pathway, and the size of the node reflects the number of entities ...
(Developers Guide)
Reactome’s Fireworks GWT widget is our original implementation of the pathways overview in GWT. It is meant to be reused by third party resources in order to display Reactome pathways overview directly ...
(Developers Guide)
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Reactome's Fireworks JS widget is our pathways overview viewer in an ordinary JavaScript API. It is meant to be reuse ...
(User Guide)
The Pathway Browser is the primary means of viewing and interacting with pathways in Reactome. It includes tools for analysing datasets and exploring pathways. These tools allow several types of analysis: ...
11.
Analysis Service
(Developers Guide)
... of the token produced during every analysis, it is possible to link back to the PathwayBrowser and browse the results overlaid on either the pathways overview or a selected pathway.
As mentioned afore, ...
12.
Analysis Tools
(User Guide)
Click on the ‘Browse Pathways’ button on the Homepage. In the next page, click the ‘Analysis’ button on the top right:
Alternatively, select the ‘Analyze Data’ button on the Homepage:
This opens ...
(Docs)
... in the model organism corresponding to any of the steps of a human pathway, then the pathway event is also inferred for the model organism.
These electronically inferred reactions are predictions based ...
14.
Content Service
(Developers Guide)
... SOAP/WSDL counterparts.
The API includes a set of methods classified in groups according to their functionality. For instance, expanding the pathways group reveals a set of methods that provide specific ...
15.
Data Model
(Docs)
... reactions into pathways.
The functions of macromolecular entities such as proteins are often determined not only by their primary sequences but by chemical modifications they have undergone. In Reactome, ...
16.
Details Panel
(User Guide)
The Details Panel is the bottom right panel of the Pathway Browser. It displays the details of molecular objects or events when selected in the Pathway Diagram or Hierarchy. The details shown depend on ...
17.
Diagram exporter
(Developers Guide)
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Introduction
In Reactome, pathway diagrams are stored using a custom format. Aimming to allow researchers ...
18.
Diagram GWT
(Developers Guide)
Reactome’s Diagram GWT widget is our original implementation of the diagram viewer in GWT. It is meant to be reused by third party resources in order to display Reactome Pathway Diagrams directly in their ...
19.
Diagram JS
(Developers Guide)
... by third party resources in order to display Reactome Pathway Diagrams directly in their web pages and enable users to interact with them.
Reusing Reactome's Diagram Widget?
To reuse our view ...
20.
Diseases
(User Guide)
Reactome can annotate and display pathways associated with disease. Reactome disease annotations include cancer, metabolic and immune disease as well as infectious diseases, among others. Where possible, ...
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