User profiles for Howard M Salis

Howard M Salis

Professor of Biological Engineering and Chemical Engineering, Penn State University
Verified email at psu.edu
Cited by 6746

Automated design of synthetic ribosome binding sites to control protein expression

HM Salis, EA Mirsky, CA Voigt - Nature biotechnology, 2009 - nature.com
Microbial engineering often requires fine control over protein expression—for example, to
connect genetic circuits 1 , 2 , 3 , 4 , 5 , 6 , 7 or control flux through a metabolic pathway 8 , 9 , …

Automated design of thousands of nonrepetitive parts for engineering stable genetic systems

…, AC Reis, D Strickland, E Klavins, HM Salis - Nature …, 2020 - nature.com
Engineered genetic systems are prone to failure when their genetic parts contain repetitive
sequences. Designing many nonrepetitive genetic parts with desired functionalities remains …

Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites

…, AS Channarasappa, HM Salis - Nucleic acids …, 2014 - academic.oup.com
The ribosome’s interactions with mRNA govern its translation rate and the effects of post-transcriptional
regulation. Long, structured 5′ untranslated regions (5′ UTRs) are commonly …

Translation initiation is controlled by RNA folding kinetics via a ribosome drafting mechanism

A Espah Borujeni, HM Salis - Journal of the American Chemical …, 2016 - ACS Publications
RNA folding plays an important role in controlling protein synthesis as well as other cellular
processes. Existing models have focused on how RNA folding energetics control translation …

A predictive biophysical model of translational coupling to coordinate and control protein expression in bacterial operons

T Tian, HM Salis - Nucleic acids research, 2015 - academic.oup.com
Natural and engineered genetic systems require the coordinated expression of proteins. In
bacteria, translational coupling provides a genetically encoded mechanism to control …

[HTML][HTML] A synthetic genetic edge detection program

JJ Tabor, HM Salis, ZB Simpson, AA Chevalier… - Cell, 2009 - cell.com
Edge detection is a signal processing algorithm common in artificial intelligence and image
recognition programs. We have constructed a genetically encoded edge detection algorithm …

The ribosome binding site calculator

HM Salis - Methods in enzymology, 2011 - Elsevier
The Ribosome Binding Site (RBS) Calculator is a design method for predicting and controlling
translation initiation and protein expression in bacteria. The method can predict the rate of …

Efficient search, mapping, and optimization of multi‐protein genetic systems in diverse bacteria

…, M Easterbrook, M Guido, HM Salis - Molecular systems …, 2014 - embopress.org
Developing predictive models of multi‐protein genetic systems to understand and optimize
their behavior remains a combinatorial challenge, particularly when measurement throughput …

Rational design of a synthetic Entner–Doudoroff pathway for improved and controllable NADPH regeneration

CY Ng, I Farasat, CD Maranas, HM Salis - Metabolic engineering, 2015 - Elsevier
NADPH is an essential cofactor for the biosynthesis of several high-value chemicals, including
isoprenoids, fatty acid-based fuels, and biopolymers. Tunable control over all potentially …

[HTML][HTML] Automated model-predictive design of synthetic promoters to control transcriptional profiles in bacteria

TL LaFleur, A Hossain, HM Salis - Nature communications, 2022 - nature.com
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 …