PathCards User Guide

Welcome to PathCards, the GeneCards Suite’s human pathway unification database, an integrated database of human biological pathways and their annotations. Human pathways are clustered, based on gene content similarity, into SuperPaths representing one or more human pathways. The PathCards unification algorithm finds a balance between reducing redundancy and optimizing the level of pathway-related informativeness for individual genes, and enables inference of gene-to-gene and gene-to-disease relationships. For more information about SuperPaths, PathCards, and associated algorithms, see our publication:

PathCards: multi-source consolidation of human biological pathways (PMID: 25725062; Citations: 290)
Belinky F, Nativ N, Stelzer G, Zimmerman S, Iny Stein T, Safran M, and Lancet, D
Database (2015) Vol. 2015: article ID bav006; DOI: 10.1093/database/bav006 [PDF].

Each PathCards web page is a richly annotated, searchable card, summarizing information about a particular SuperPath, which includes its pathway network, member pathways, associated genes, associated disorders, STRING interaction network, and contributing data sources. Sections that include a table have an area above the table which provides:

  • a Show menu on the left for defining the number of rows to show,
  • a Search menu on the right for filtering the rows to display only those that match user-specified terms, and
  • a Download widget for downloading the table. Note that one must have registered and be logged into the site to enable downloads.

The footer below each table provides paging of the rows on the right, and lists the total number of rows in the table together which of those rows are currently displayed on the left.

A key feature of this PathCards database is its extensive gene association data, which is provided via integration with GeneCards, The Human Gene Database, MalaCards, The Human Disease Database, and GeneAnalytics, the GeneCards Powered Gene Set Enrichment tool. PathCards data is integrated from 11 selected web sources, and is updated on a regular basis.

What's in a Card

Learn about the information provided in a PathCard and how to navigate the card:

Acknowledgements