E. Musteata, S. Aghlara-Fotovat, M. D. Doerfert, M. Baruch, M. Levitan, J.J. Tabor, O. Veiseh
“Hydrogel-encapsulation to enhance bacterial diagnosis of colon inflammation”
Biomaterials. 301 (2023). DOI:10.1016/j.biomaterials.2023.122246 [PDF]

Brink KR, Hunt MG, Mu AM, Groszman K, Hoang KV, Lorch KP, Pogostin BH, Gunn JS, Tabor JJ.
“An E. coli display method for characterization of peptide–sensor kinase interactions”
Nat Chem Biol. 2023 Apr; 19(4):451-459. DOI: 10.1038/s41589-022-01207-z. Epub 2022 Dec 8. PMID: 36482094 [PDF]

R.J. Butcher, J.J. Tabor*
“Real-time detection of response regulator phosphorylation dynamics in live bacteria”
PNAS 119 (35) e2201204119 (2022). DOI:10.1073/pnas.2201204119 [PDF]

J. Beal*, B. Teague, J. T. Sexton, S. Castillo-Hair, N. A. DeLateur, M. Samineni, J. J. Tabor, R. Weiss, and the Calibrated Flow Cytometry Study Consortium
“Meeting Measurement Precision Requirements for Effective Engineering of Genetic Regulatory Networks”
ACS Syn. Biol. 11 (3) 1196–1207 (2022). DOI:10.1021/acssynbio.1c00488 [PDF]

K.P. Gerhardt, S.D. Rao, E.J. Olson, O.A. Igoshin, J.J. Tabor*
“Independent contol of mean and noise by convolution of gene expression distributions”
Nature Communications 12, 6957 (2021). DOI:10.1038/s41467-021-27070-5 [PDF]

Lazar, J., and Tabor, J.J.*
“Bacterial two-component systems as sensors for synthetic biology applications”
Current Opinion in Systems Biology (2021). DOI:10.1016/j.coisb.2021.100398 [PDF]

Baig H., Fontanarossa P., Kulkarni V., McLaughlin J., Vaidyanathan P., Bartley B., Bhakta S., Bhatia S., Bissell M., Clancy K., Cox R.S., Goñi Moreno A., Gorochowski T., Grunberg R., Lee J., Luna A., Madsen C., Misirli G., Nguyen T., Le Novere N., Palchick Z., Pocock M., Roehner N., Sauro H., Scott-Brown J., Sexton J.T., Stan G.B., Tabor J.J., Terry L., Vazquez Vilar M., Voigt C.A., Wipat A., Zong D., Zundel Z., Beal J., Myers C.
“Synthetic biology open language visual (SBOL Visual) version 2.3”
J. Integr. Bioinform. DOI:10.1515/jib-2020-0045 [PDF]

I.M. Cartwright, A.S. Dowdell, J.M. Lanis, K.R. Brink, A. Mu, R.E. Kostelecky, R.E.M. Schaefer, N. Welch, J.C. Onyiah, C.H.T. Hall, M.E. Gerich, J.J. Tabor*, S.P. Colgan*
“Mucosal acidosis elicits a unique molecular signature in epithelia and intestinal tissue mediated by GPR31-induced CREB phosphorylation”
PNAS 118(20):e2023871118 (2021). DOI:10.1073/pnas.2023871118 [PDF]

L.A. Hartsough, M. Park, M.V. Kotlajich, J.T. Lazar, B. Han, C.J. Lin, E. Musteata, L. Gambill, M.C. Wang*, J.J. Tabor*
“Optogenetic control of gut bacterial metabolism to promote longevity.”
eLife. 9:e56849 (2020). DOI: 10.7554/eLife56849 [PDF]

Sexton, J.T., Tabor J.J.*
“Multiplexing cell‐cell communication.”
Mol. Syst. Biol. 16:e9618 (2020). DOI: 10.15252/msb.20209618 [PDF]

Baig H., Fontanarrosa P., Kulkarni V., McLaughlin J., Vaidyanathan P., Bartley B., Bhatia S., Bhakta S., Bissell M., Clancy K., Cox R.S., Moreno A.G., Gorochowski T., Grunberg R., Luna A., Madsen C., Misirli G., Nguyen T., Le Novere N., Palchick Z., Pocock M., Roehner N., Sauro H., Scott-Brown J., Sexton J.T., Stan G.B., Tabor J.J., Vilar M.V., Voigt C.A., Wipat A., Zong D., Zundel Z., Beal J., Myers C.
“Synthetic biology open language visual (SBOL visual) version 2.2.”
J. Integr. Bioinformat. (2020). DOI: 10.1515/jib-2020-0014 [PDF]

M. Hörner, K. Gerhardt, P. Salavei, P. Hoess, D. Härrer, J. Kaiser, J.J. Tabor, W. Weber*
“Production of phytochromes by high cell density E. coli fermentation.”
ACS Syn. Biol. 8(10), 2442-2450 (2019). DOI: 10.1021/acssynbio.9b00267 [PDF]

J. Beal*, T. Nguyen, T.E. Gorochowski, A. Goñi-Moreno, J. Scott-Brown, J.A. McLaughlin, C. Madsen, B. Aleritsch, B. Bartley, S. Bhakta, M. Bissell, S.M. Castillo-Hair, K. Clancy, A. Luna, N.L. Novere, Z. Palchick, M. Pocock, H. Sauro, J.T. Sexton, J.J. Tabor, C.A. Voigt, Z. Zundel, C.J. Myers, and A. Wipat
“Communicating structure and function in synthetic biology diagrams.”
ACS Syn. Biol. 8(8), 1818-1825 (2019). DOI: 10.1021/acssynbio.9b00139 [PDF]

S.M. Castillo-Hair, E.A. Baerman, M. Fujita, O.A. Igoshin, J.J. Tabor*
“Optogenetic control of Bacillus subtilis gene expression.”
Nat. Commun. 10, 3099 (2019). DOI: 10.1038/s41467-019-10906 [PDF]

C. Madsen, A.G. Moreno, Z. Palchick, P. Umesh, N. Roehner, B. Bartley, S. Bhatia, S. Bhakta, M. Bissell, K. Clancy ,R.S. Cox, T. Gorochowski, R. Grunberg, A. Luna, J. McLaughlin, T. Nguyen, N.Le Novere, M. Pocock, H. Sauro, J. Scott-Brown, J.T. Sexton, G.-B. Stan, J.J. Tabor, C.A. Voigt, Z. Zundel, C. Myers, J. Beal*, A. Wipat
“Synthetic Biology Open Language Visual (SBOL Visual) Version 2.1”
J. Integr. Bioinformat. (2019). DOI: 10.1515/jib-2018-0101 [PDF]

S.M. Castillo-Hair, M. Fujita, O.A. Igoshin, J.J. Tabor*
“An Engineered B. subtilis Inducible Promoter System with over 10,000-Fold Dynamic Range.”
ACS Syn. Biol. 8(7), 1673-1678 (2019). DOI: 10.1021/acssynbio.8b00469 [PDF]

K.P. Gerhardt, S.M. Castillo-Hair, J.J. Tabor*
“DIY optogenetics: building, programming, and using the Light Plate Apparatus.”
Methods Enzymol. (2019). DOI: 10.1016/bs.mie.2019.04.018 [PDF]

S.R. Schmidl^†, F. Ekness^†, K. Sofjan, K.N.-M. Daeffler, K.R. Brink, B.P. Landry, K.P. Gerhardt, N. Dyulgyarov, R.U. Sheth, J.J. Tabor*
“Rewiring bacterial two-component systems by modular DNA-binding domain swapping.”
Nat. Chem. Biol. 15(7), 690–698 (2019). DOI: 10.1038/s41589-019-0286-6 [PDF]

E.J. Lee, T.M. Robinson, J.J. Tabor, A.G. Mikos, J. Suh*
“Reverse transduction can improve efficiency of AAV vectors in transduction‐resistant cells.”
Biotechnol. Bioeng. 115(12), 3042-3049 (2018). DOI: 10.1002/bit.26830 [PDF]

B.P. Landry, R. Palanki, N. Dyulgyarov, L.A. Hartsough, J.J. Tabor*
“Phosphatase activity tunes two-component system sensor detection threshold.”
Nat. Commun. 9(1433), 1-10 (2018). DOI: 10.1038/s41467-018-03929-y [PDF]

R.S. Cox, C. Madsen, J. McLaughlin, T. Nguyen, N. Roehner, B. Bartley, S, Bhatia, M. Bissell, K. Clancy, T. Gorochowski, R. Grünberg, A. Luna, N. Le Novere, M. Pocock, H. Sauro, J.T. Sexton, G.B. Stan, J.J. Tabor, C.A. Voigt, Z. Zundel, C. Myers, J. Beal, A. Wipat*
“Synthetic Biology Open Language Visual (SBOL Visual) Version 2.0.”
J. Integr. Bioinform. 1613-4516 (2018). DOI: 10.1515/jib-2017-0074 [PDF]

N.T. Ong, J.J. Tabor*
“A miniaturized E. coli green light sensor with high dynamic range.”
Chembiochem. 19, 1255-1258 (2018). DOI: 10.1002/cbic.201800007 [PDF]

N.T. Ong, E.J. Olson, J.J. Tabor*
“Engineering an E. coli Near-Infrared Light Sensor.”
ACS Syn. Biol. 7(1), 240–248 (2018). DOI: 10.1021/acssynbio.7b00289 [PDF]

B.P. Landry, J.J. Tabor*
“Engineering Diagnostic and Therapeutic Gut Bacteria.”
Microbiol Spectrum 5(5), BAD-0020 (2017). DOI: 10.1128/microbiolspec.BAD-0020-2017 [PDF]

E.J. Olson, C.N. Tzouanas, J.J. Tabor*
“A photoconversion model for full spectral programming and multiplexing of optogenetic systems.”
Mol. Syst. Biol. 13(4), 926 (2017). DOI: 10.15252/msb.20167456 [PDF]

K.N-M. Daeffler, J.D. Galley, R.U. Sheth, L.C. Ortiz-Velez, N.F. Shroyer, R.A. Britton, J.J. Tabor*
“Engineering bacterial thiosulfate and tetrathionate sensors for detection of gut inflammation.”
Mol. Syst. Biol. 13(4), 923 (2017). DOI: 10.15252/msb.20167416 [PDF]

K.P. Gerhardt, E.J. Olson, S.M. Castillo-Hair, L.A. Hartsough, B.P. Landry, F. Ekness, R. Yokoo, E.J. Gomez, P. Ramakrishnan, J. Suh, D.F. Savage, J.J. Tabor*
“An open-hardware platform for optogenetics and photobiology.”
Sci. Rep. 6, 35363 (2016). DOI: 10.1038/srep35363 [PDF]

P. Ramakrishnan, J.J. Tabor*
“Repurposing Synechocystis PCC6803 UirS-UirR as a UV-violet/green photoreversible transcriptional regulatory tool in E. coli.“
ACS Syn. Biol. 5(7), 733–740 (2016). DOI: 10.1021/acssynbio.6b00068 [PDF]

S.M. Castillo-Hair, J.T. Sexton, B. Landry, E.J. Olson, O.A. Igoshin, J.J. Tabor*
“FlowCal: A user-friendly, open source software tool for automatically converting flow cytometry data from arbitrary to calibrated units.”
ACS Syn. Biol. 5(7), 774–780 (2016). DOI: 10.1021/acssynbio.5b00284 [PDF]

E.J. Gomez, K. Gerhardt, J. Judd, J.J. Tabor, S. Junghae*
“Light-Activated Nuclear Translocation of Adeno-Associated Virus Nanoparticles Using Phytochrome B for Enhanced, Tunable, and Spatially Programmable Gene Delivery.”
ACS Nano. 10(1), 225-237 (2016). DOI: 10.1021/acsnano.5b05558 [PDF]

S.M. Castillo-Hair, O.A. Igoshin, J.J. Tabor*
“How to train your microbe: tools for dynamically characterizing gene networks.”
Curr. Opin Microbiol. 24, 113–123 (2015). DOI: 10.1016/j.mib.2015.01.008

S. Schmidl, R.U. Sheth, A. Wu, J.J. Tabor*
“Refactoring and optimization of light-switchable Escherichia coli two component systems.”
ACS Syn. Biol. 3(11), 820-831 (2014). DOI: 10.102/sb500273n PMID:25250630

E.J. Olson, J.J. Tabor*
“Optogenetic characterization methods overcome key challenges in synthetic and systems biology.”
Nat. Chem. Biol. 10, 502-511 (2014).

E.J. Olson, L.A. Hartsough, B.P. Landry, R. Shroff, J.J. Tabor*
“Characterizing bacterial gene circuit dynamics with optically programmed gene expression signals.”
Nat. Methods 11(4), 449-455 (2014).

E.J. Lee, J.J. Tabor, A.G. Mikos*
“Leveraging Synthetic Biology for Tissue Engineering Applications.”
Inflamm. Regener. 34, 15-22 (2014).

J.J. Tabor*
“Modular gene-circuit design takes two steps forward.”
Nat. Methods 9, 1061-1063 (2012).

E.J. Olson, J.J. Tabor*
“Post-translational tools expand the scope of synthetic biology.”
Curr. Opin. Chem. Biol. 16(3-4), 300-306 (2012).

J.C. Ray, J.J. Tabor, O. Igoshin*
“Non-transcriptional regulatory processes shape transcriptional network dynamics.”
Nat. Rev. Microbiol. 9(11), 817-828 (2011).

J.J. Tabor*
“Plate-based assays for light-regulated gene expression systems.”
Method. Enzymol. 497, 373-391, ed. C.A. Voigt, Academic Press (2011): 978-0-12-385-075-1.

A. Tamsir, J.J. Tabor, C.A. Voigt*
“Robust multicellular computing using genetically encoded NOR gates and chemical ‘wires’.”
Nature 469 212-215 (2011).

J.J. Tabor, A. Levskaya, C.A. Voigt*
“Multichromatic control of gene expression in Escherichia coli.”
J. Mol. Biol. 405(2), 315-324 (2011).

J.J. Tabor, H. Salis, Z.B. Simpson, A.A. Chevalier, A. Levskaya, E.M. Marcotte, C.A. Voigt* and A.D. Ellington
“A Synthetic Genetic Edge Detection Program.”
Cell 137(7) 1272-1281 (2009).

J.J. Tabor, E.S. Groban, C.A. Voigt*
“Performance Characteristics for Sensors and Circuits Used to Program E. coli.”
Systems Biology and Biotechnology of E. coli, ed. S.Y. Lee, Springer, XXII (2009): 978-1-4020-9393-7.

J.J. Tabor, M. Levy, Z.B. Simpson, A.D. Ellington*
“Parasitism and protocells: The tragedy of the molecular commons.”
Protocells: Bridging Nonliving and Living Matter, eds. S. Rasmussen, M.A. Bedau, L. Chen, D. Deamer, D.C. Krakauer, N. Packer, P.F. Stadler, MIT Press (2008).

J.J. Tabor, T.S. Bayer, Z.B. Simpson, M. Levy, A.D. Ellington*
“Engineering Stochasticity in Gene Expression.”
Mol. Biosys. 4(7) 754-761 (2008).

M. Levy, J.J. Tabor, S. Wong
“Taking pictures with E. coli: Signal processing using synthetic biology.”
IEEE Sig. Proc. Mag. 23(3) 142-144 (2006).

J.J. Tabor, M. Levy, A.D. Ellington*
“Deoxyribozymes that recode sequence information.”
Nuc Acids Res 34(8) 2166-2172 (2006).

J.J. Tabor, E.A. Davidson, A.D. Ellington*
“Developing RNA tools for engineered regulatory systems.”
Biotechnology and Genetic Engineering Reviews, ed. S.E. Harding, Intercept, Ltd., 22 21-44 (2006).

A. Levskaya, A.A. Chevalier, J.J. Tabor, Z.B. Simpson, L.A. Lavery, M. Levy, E.A. Davidson, A. Scouras, A.D. Ellington, E.M. Marcotte, C.A. Voigt*
“Synthetic Biology: Engineering Escherichia coli to see light.”
Nature 438(7067) 441-442 (2005). 

J.J. Tabor, A.D. Ellington*
“Playing to Win at DNA computation.”
Nat. Biotech. 21(9) 1013-1015 (2003).