Howard Salis

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IEE Research Themes
Cofunded Faculty Member
Titles and Affiliations
Associate Professor of Agricultural and Biological Engineering, Agricultural & Biological Engineering

Research Summary

Focuses on the development of rational design methods for engineering synthetic biological systems - metabolic pathways, genetic circuits and genomes. He develops kinetic and thermodynamic models of genetic regulation and tests those predictions in industrially and medically useful microorganisms to gain a quantitative understanding of genetic function. He also programs synthetic microorganisms to manufacture useful chemicals for bioenergy applications and to better understand the dynamical behavior of natural microorganisms.

Research Keywords

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Recent Publications

Systematic Quantification of Sequence and Structural Determinants Controlling mRNA stability in Bacterial Operons

Cetnar, D. P. & Salis, H. M., Feb 19 2021, In: ACS Synthetic Biology. 10, 2, p. 318-332 15 p.

Research output: Contribution to journalArticlepeer-review

Selenium-dependent metabolic reprogramming during inflammation and resolution

Korwar, A. M., Hossain, A., Lee, T. J., Shay, A. E., Basrur, V., Conlon, K., Smith, P. B., Carlson, B. A., Salis, H. M., Patterson, A. D. & Prabhu, K. S., Jan 1 2021, In: Journal of Biological Chemistry. 296, 100410.

Research output: Contribution to journalArticlepeer-review

Purification of Cas9—RNA complexes by ultrafiltration

Manzano, I., Taylor, N., Csordas, M., Vezeau, G. E., Salis, H. M. & Zydney, A. L., Mar 1 2021, In: Biotechnology progress. 37, 2, e3104.

Research output: Contribution to journalArticlepeer-review

Synthesis Success Calculator: Predicting the Rapid Synthesis of DNA Fragments with Machine Learning

Halper, S. M., Hossain, A. & Salis, H. M., Jul 17 2020, In: ACS Synthetic Biology. 9, 7, p. 1563-1571 9 p.

Research output: Contribution to journalArticlepeer-review

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

Hossain, A., Lopez, E., Halper, S. M., Cetnar, D. P., Reis, A. C., Strickland, D., Klavins, E. & Salis, H. M., Dec 2020, In: Nature Biotechnology. 38, 12, p. 1466-1475 10 p.

Research output: Contribution to journalArticlepeer-review

Convolutional neural net learns promoter sequence features driving transcription strength

Leiby, N., Hossain, A. & Salis, H. M., Mar 11 2020, In: EPiC Series in Computing. 70, p. 163-172 10 p.

Research output: Contribution to journalConference articlepeer-review

RNA size and 3-dimensional structure determine ultrafiltration behavior of small RNA molecules

Manzano, I., Vezeau, G., Salis, H. & Zydney, A. L., Apr 15 2020, In: Separation and Purification Technology. 237, 116372.

Research output: Contribution to journalArticlepeer-review

An automated model test system for systematic development and improvement of gene expression models

Reis, A. C. & Salis, H. M., Nov 20 2020, In: ACS Synthetic Biology. 9, 11, p. 3145-3156 12 p.

Research output: Contribution to journalArticlepeer-review

Simultaneous repression of multiple bacterial genes using nonrepetitive extra-long sgRNA arrays

Reis, A. C., Halper, S. M., Vezeau, G. E., Cetnar, D. P., Hossain, A., Clauer, P. R. & Salis, H. M., Nov 1 2019, In: Nature Biotechnology. 37, 11, p. 1294-1301 8 p.

Research output: Contribution to journalArticlepeer-review

Controlling Heterogeneity and Increasing Titer from Riboswitch-Regulated Bacillus subtilis Spores for Time-Delayed Protein Expression Applications

Tamiev, D., Lantz, A., Vezeau, G., Salis, H. & Reuel, N. F., Oct 18 2019, In: ACS Synthetic Biology. 8, 10, p. 2336-2346 11 p.

Research output: Contribution to journalArticlepeer-review