TFBS Analysis - Upload Data

InnateDB incorporates transcription factor binding site (TFBS) data from the CisRED database for human and mouse genes.
Users can analyse a list of genes to determine whether particular TFBSs are over-represented in their dataset based on this data.

To do a TFBS Analysis, first upload a tab-delimited text file or Excel spreadsheet (.xls files only) of gene/protein identifiers (human or mouse only). Please see our help page if you are unsure how to do this and to see what IDs are accepted.

Once you have a list of TFBSs associated with your gene/protein list - click on the "TF ORA" button at the top of the page.

If you use InnateDB for your research, please cite the following publication:

Breuer et al., InnateDB: systems biology of innate immunity and beyond - recent updates and continuing curation. Nucl. Acids Res. (2013) 41 (D1)

InnateDB is being developed jointly by the Brinkman Laboratory (Simon Fraser University, British Columbia, Canada), the Hancock Laboratory (University of British Columbia, Vancouver, British Columbia) and the Lynn EMBL Australia Group (South Australian Health & Medical Research Institute and Flinders University, Adelaide, Australia).

Funding is currently provided by Allergen and EMBL Australia. Previous funding has been provided by Genome Canada, the Foundation for the National Institutes of Health through the Grand Challenges in Global Health initiative and by Teagasc. InnateDB curated interactions are licensed under the Design Science License. All other data is licensed under the terms of the originating database. Contact: innatedb-mail@sfu.ca