Products/Services Used | Details | Operation |
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Custom DNA/RNA Oligos> | … An oligopool containing a mixture of 170 nt oligonucleotides was synthesized (Genscript). Each oligonucleotide design contained a promoter variant, four restriction enzyme cut sites, … | Get A Quote |
Transcription rates are regulated by the interactions between RNA polymerase, sigma factor, and promoter DNA sequences in bacteria. However, it remains unclear how non-canonical sequence motifs collectively control transcription rates. Here, we combine massively parallel assays, biophysics, and machine learning to develop a 346-parameter model that predicts site-specific transcription initiation rates for any σ promoter sequence, validated across 22132 bacterial promoters with diverse sequences. We apply the model to predict genetic context effects, design σ promoters with desired transcription rates, and identify undesired promoters inside engineered genetic systems. The model provides a biophysical basis fo... More