WEB-based GEne SeT AnaLysis Toolkit
Translating gene lists into biological insights...

ORA Sample Run | GSEA Sample Run | Manual | GOView | Citation | User Forum | WebGestalt 2013
Basic Parameters

Select Organism of Interest

Select Method of Interest

Select Functional Database

Select ID Type of the uploaded database

Upload Functional Database (max size: 1M)

Upload Database Description File
(optional, max size: 1M)

Gene List

Select Gene ID Type

Upload Gene List (max size: 1M)

Reference Gene List

Select Reference Set for Enrichment Analysis

Upload User Reference Set File (max size: 1M)
and Select ID Type

Advanced parameters

Minimum Number of Genes for a Category

Maximum Number of Genes for a Category

Multiple Test Adjustment

Significance Level


Number of Permutations

Number of Categories with Leading-Edge

Collapse Method

Number of categories visualized in the report

WebGestalt (WEB-based Gene SeT AnaLysis Toolket) is one of the most popular web tools for functional enrichment analysis, which has been visited over 200,000 times by more than 81,000 unique users from 142 countries and territories according to Google Analytics. The WebGestalt 2005 and WebGestalt 2013 papers have been cited in 1143 scientific papers since 2013 according to Google Scholar.

WebGestalt 2017 significantly increased the number of supported organisms, gene identifiers, and functional categories in WebGestalt. Notably, experimental data from organisms or with gene identifiers not covered by the WebGestalt database can also be analyzed in WebGestalt. WebGestalt also supports three well-established and complementary methods for enrichment analysis, including Over-Representation Analysis (ORA), Gene Set Enrichment Analysis (GSEA), and Network Topology-based Analysis (NTA). To facilitate easy exploration and better understanding of the enrichment results, we have revamped the output interface with a user-friendly, tab-based, and interactive report. We have also developed a companion tool GOView that can help visualize and compare multiple Gene Ontology (GO) enrichment results under the GO Directed Acyclic Graph (DAG) structure.

Data sources for WebGestalt 2017 was updated on 1/27/2017, which supports 12 organisms, 324 gene identifiers from various databases and technology platforms, and 150,937 functional categories from public databases and computational analyses. Information in this version was collected from the following resources: