A
Amin Espah Borujeni
Researcher at Massachusetts Institute of Technology
Publications - 17
Citations - 1396
Amin Espah Borujeni is an academic researcher from Massachusetts Institute of Technology. The author has contributed to research in topics: Translation (biology) & Eukaryotic translation. The author has an hindex of 10, co-authored 16 publications receiving 1109 citations. Previous affiliations of Amin Espah Borujeni include Delft University of Technology & Pennsylvania State University.
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Journal ArticleDOI
Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites
TL;DR: A biophysical model employing thermodynamic first principles and a four-parameter free energy model is developed and confirmed that the ribosome can readily bind distant standby site modules that support high translation rates, providing a physical mechanism for observed context effects and long-range post-transcriptional regulation.
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Automated physics-based design of synthetic riboswitches from diverse RNA aptamers
Amin Espah Borujeni,Dennis M. Mishler,Jingzhi Wang,Walker Huso,Howard M. Salis,Howard M. Salis +5 more
TL;DR: A model-based approach for engineering riboswitches quantitatively confirms several physical mechanisms governing ligand-induced RNA shape-change and enables the development of cell-free and bacterial sensors for diverse applications.
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Translation Initiation is Controlled by RNA Folding Kinetics via a Ribosome Drafting Mechanism.
TL;DR: A new mechanism, called "ribosome drafting", is introduced that explains how a mRNA's folding kinetics and the ribosome's binding rate collectively control its translation initiation rate, and the results have widespread implications, illustrating how competitive folding and assembly kinetics can shape the gene expression machinery's sequence-structure-function relationship inside cells.
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A Pressure Test to Make 10 Molecules in 90 Days: External Evaluation of Methods to Engineer Biology
Arturo Casini,Fang-Yuan Chang,Raissa Eluere,Andrew M. King,Eric M. Young,Quentin M. Dudley,Ashty S. Karim,Katelin Pratt,Cassandra Bristol,Anthony L. Forget,Anthony L. Forget,Amar Ghodasara,Robert Warden-Rothman,Rui Gan,Alexander Cristofaro,Amin Espah Borujeni,Min-Hyung Ryu,Jian Li,Yong-Chan Kwon,He Wang,Evangelos C. Tatsis,Carlos E. Rodríguez-López,Sarah E. O'Connor,Marnix H. Medema,Michael A. Fischbach,Michael C. Jewett,Christopher A. Voigt,Christopher A. Voigt,D. Benjamin Gordon,D. Benjamin Gordon +29 more
TL;DR: This foundry constructed 1.2 Mb DNA, built 215 strains spanning five species, established a cell-free system for monoterpene production, produced an intermediate toward vincristine biosynthesis, and encoded 7802 individually retrievable pathways to 540 bisindoles in a DNA pool.
Journal ArticleDOI
Precise quantification of translation inhibition by mRNA structures that overlap with the ribosomal footprint in N-terminal coding sequences.
Amin Espah Borujeni,Daniel P. Cetnar,Iman Farasat,Ashlee Smith,Natasha Lundgren,Howard M. Salis +5 more
TL;DR: Overall, the results provide precise quantification of the rules governing translation initiation at N-terminal coding regions, improving the predictive design of post-transcriptional regulatory elements that regulate translation rate.