I am trying to idenfy interferon stimulating responsive element (ISRE) and gamma-interferon-activation sites (GAS)in promoter region of gene of my interest using online databases.
Researchers has developed programs to identify these elements and they reported in in paper "REFINEMENT: A search framework for the identification of interferon-responsive elements in DNA sequences – a case
study with ISRE and GAS" published in journal "computation biology and chemistry". But program link provided in the paper is not working currently.
Does some one please explain me how to look for these elements in promoter region of a gene using databass or programs.
If your goal is to search for potential ISREs and GAS sequences in the regulatory region of the gene of your interest, there are simple ways: for human genes you can find this information by looking at the information at SABioscience website; for mouse gene you can search using the same website. If the regulatory sequence of your gene is available, search through Transcription Factor binding site search tools. If you plan to follow this with experiments to find out inducibility of your gene by the IFN-signaling, I suggest that you do the experiment first using an IFN-responsive cell system and if the gene expression is responsive to activation of IFN-signaling, look for the regulatory elements (ISREs and GAS). This approach may save you time and other resources (because IFNs regulate gene expression directly and indirectly).
Hi,
I'm interested in the same question. Have you found out a way to find the GAS/IRSE elements? And what online database do you recommend using? Thanks a bunch!