![]() ![]() "As a synthetic biology tool, PPTP-seq allows high-throughput study of gene regulation," Zhang said. ![]() coli's regulatory landscape, revealing novel regulatory responses and setting the stage for future genetic exploration. This single experiment provided insight into more than 200,000 potential TF-promoter interactions, painting a comprehensive picture of E. ![]() coli promoters when subjected to perturbation of each of the 183 TFs. 16 in Nature Communications, first author Yichao Han, who earned a doctorate in environmental engineering in 2023 while working in Zhang's lab, used PPTP-seq to systematically explore the activity of 1,372 E. The groundbreaking technique allows scientists to examine gene regulation by hundreds of TFs acting on thousands of promoters in a single experiment, which takes about two weeks to complete and produces easily processable data. PPTP-seq integrates CRISPR gene editing with a combinatorial library containing every known TF in the target genome and corresponding promoters. Louis, developed a technique called pooled promoter responses to TF perturbation sequencing (PPTP-seq). To tackle this challenge, researchers led by Fuzhong Zhang, professor of energy, environmental & chemical engineering in the McKelvey School of Engineering at Washington University in St. Unlocking the secrets of these genome-scale regulatory networks requires a comprehensive collection of gene expression profiles, but measuring gene expression responses for every TF and promoter pair has posed a formidable challenge due to the sheer number of potential combinations, even in relatively simple organisms such as bacteria. ![]()
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