TraFaC/GenomeTraFaC
Developed by the Aronow/Jegga research lab, TraFaC and GenomeTraFaC are companion resources for researchers interested in using a comparative sequence analysis approach to find potential cis-regulatory elements in genes.
TraFaC is a web-based Java" application that enables users to search human and murine sequences for transcription factor binding sites in the phylogenetically conserved regions. Results are stored and can be visualized in multiple ways (see example graphical outputs below). By obtaining a login account, you also can upload and analyze your own sequences.
GenomeTraFaC is a database containing more than 12,000 human and mouse orthologous gene pairs with a validated RefSeq ID that have been aligned and analyzed using TraFaC and other programs. As with TraFaC, you can generate a graph of the binding sites occuring in both sequences as well as a cis-element hit density image that depicts a moving-window average of the number of shared cis-elements occurring in phylogenetically conserved regions.
TraFaC and GenomeTraFaC generate two visual outputs: the TrafacGram (l) and the Regulogram (r).
Contact Us
For more information, contact Bruce Aronow, PhD, or Anil Jegga, DVM.
