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Bioinformatics Software: BIOBASE

Main Applications

BIOBASE is a suite of biomolecule knowledgebase and analysis tools.  

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.    

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. 


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

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

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