Bioinformatics Software: geneXplain

geneXplain is a suite of biomolecule knowledgebase and analysis tools.  

TRANSFAC: The largest eukaryotic gene regulation database

TRANSFAC database covers the most comprehensive transcription regulation information, including experimentally validated transcription factor binding site, positional weight matrices (for transcription factor binding prediction), promoter sequences and features, miRNAs and their target sequences, and extensive structural and functional information on transcription factors and composite elements. 

PROTEOME: Expert curated knowledgebase for proteins

PROTEOME features disease, drug, biomarker and pathway information for proteins manually curated from PubMed abstracts and over 500 full-text publications.  Users can also perform statistical analysis to identify disease, pathways, or processes that are over-represented by a gene set of interest.

USC has licensed geneXplain for the free use of USC faculty, students and staff.  The license consists of SIX (6) concurrent user seats.  To get your geneXplain account:

1. Carefully read the geneXplain user policy
2. Fill out and submit the geneXplain registration form
3. Activate your account following the link in the confirmation email sent out by geneXplain (within 1-2 business days)
4. Log in here to use geneXplain.  USC VPN is required when accessing off-campus. 

Get started​

• TRANSFAC overview
• geneXplain Knowledgebase Overview

Help @ geneXplain

• A Help button is available for most tasks in geneXplain
• Contact geneXplain support: support@geneexplain.com

Help @ USC Libraries Bioinformatics Service

• Email us: nmlbio@usc.edu