Amin Espah Borujeni
Amin Espah Borujeni
Postdoctoral Associate, MIT
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Translation rate is controlled by coupled trade-offs between site accessibility, selective RNA unfolding and sliding at upstream standby sites
A Espah Borujeni, AS Channarasappa, HM Salis
Nucleic acids research, gkt1139, 2013
Automated physics-based design of synthetic riboswitches from diverse RNA aptamers
A Espah Borujeni, DM Mishler, J Wang, W Huso, HM Salis
Nucleic acids research, gkv1289, 2015
Translation initiation is controlled by RNA folding kinetics via a ribosome drafting mechanism
A Espah Borujeni, HM Salis
Journal of the American Chemical Society 138 (22), 7016-7023, 2016
A pressure test to make 10 molecules in 90 days: External evaluation of methods to engineer biology
A Casini, FY Chang, R Eluere, AM King, EM Young, QM Dudley, A Karim, ...
Journal of the American chemical Society, 2018
Precise quantification of translation inhibition by mRNA structures that overlap with the ribosomal footprint in N-terminal coding sequences
A Espah Borujeni, D Cetnar, I Farasat, A Smith, N Lundgren, HM Salis
Nucleic Acids Research, gkx061, 2017
Dynamic control of endogenous metabolism with combinatorial logic circuits
F Moser, A Espah Borujeni, AN Ghodasara, E Cameron, Y Park, CA Voigt
Molecular Systems Biology 14 (11), e8605, 2018
Genome‐derived minimal metabolic models for Escherichia coli MG1655 with estimated in vivo respiratory ATP stoichiometry
H Taymaz‐Nikerel, A Espah Borujeni, PJT Verheijen, JJ Heijnen, ...
Biotechnology and bioengineering 107 (2), 369-381, 2010
Genetic circuit characterization and debugging using RNA‐seq
TE Gorochowski *, A Espah Borujeni *, Y Park *, AAK Nielsen, J Zhang, ...
Molecular Systems Biology 13 (11), 952, 2017
Precision design of stable genetic circuits carried in highly‐insulated E. coli genomic landing pads
Y Park, A Espah Borujeni, TE Gorochowski, J Shin, CA Voigt
Molecular Systems Biology, 2020
Genetic circuit characterization by inferring RNA polymerase movement and ribosome usage
A Espah Borujeni, J Zhang, H Doosthosseini, AAK Nielsen, CA Voigt
Nature Communications 11 (1), 1-18, 2020
Genetic Circuit Dynamics: Hazard and Glitch Analysis
P Fontanarrosa, H Doosthosseini, A Espah Borujeni, Y Dorfan, CA Voigt, ...
ACS Synthetic Biology 9 (9), 2324-2338, 2020
A data-driven method for quantifying the impact of a genetic circuit on its host
A Hasnain, S Sinha, Y Dorfan, A Espah Borujeni, Y Park, P Maschhoff, ...
2019 IEEE Biomedical Circuits and Systems Conference (BioCAS), 1-4, 2019
A thermodynamic analysis of dicarboxylic acid production in microorganisms
H Taymaz-Nikerel, E Jamalzadeh, A Espah Borujeni, PJT Verheijen, ...
Biothermodynamics, 550-582, 2013
Prediction of whole-cell transcriptional response with machine learning
M Eslami, AE Borujeni, H Eramian, M Weston, G Zheng, J Urrutia, ...
Bioinformatics 38 (2), 404-409, 2022
The development of equilibrium and non-equilibrium models of translation and riboswitch regulation: Towards the automated design of cellular sensors
A Espah Borujeni
Automated design of synthetic bacterial small RNAs
A Espah Borujeni, E Dong, HM Salis
The 5th annual q-bio conference on cellular information processing, Santa Fe …, 2011
A Theoretical Analysis on Resin Injection/Compression Molding
A Shojaei, A Spah
Key Engineering Materials 334, 209-212, 2007
Disentangling gene expression burden identifies generalizable phenotypes induced by synthetic gene networks
A Hasnain, AE Borujeni, YJ Park, D Becker, P Maschhoff, J Urrutia, ...
bioRxiv, 2023.06. 29.547078, 2023
In vivo estimation of energetic parameters of a metabolic network model for substrate limited growth of E. coli
H Taymaz-Nikerel, PJT Verheijen, A Espah Borujeni, JJ Heijnen, ...
New Biotechnology 25, S337-S338, 2009
Genetic Circuit Design for Extreme Environments Enabled by Models Extracted from Petabyte-Scale Perturbation Analyses
AE Borujeni, H Doosthosseini, Y Dorfan, AJ Triassi, DA Anderson, ...
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