Browse by Publication

Some labs characterize a noteworthy amount of publications that fit the standards of the repository. Some others characterize a large amount of parts within some few publications. These are organized here by the PI leading the research group for each of the characterizations.

Wang Lab

• A modular cell-based biosensor using engineered genetic logic circuits to detect and integrate multiple environmental signals.

  Wang, B., Barahona, M. and Buck, M., in 2013

  4 Regulated Promoters

• Engineered CRISPRa enables programmable eukaryote-like gene activation in bacteria

  Liu, Y., Wan, X., and Wang, B., in 2019

  6 CRISPR Systems

• An expanded library of orthogonal split inteins enables modular multi-peptide assemblies

  Pinto, F., Thornton, E. and Wang, B., in 2020

  15 Split Iteins

• Comprehensive Profiling of Diverse Genetic Reporters with Application to Whole-Cell and Cell-Free Biosensors

  Lopreside, A., Wan, X., Michelini, E., Roda, A. and Wang, B., in 2019

  Reporters

Voigt Lab

• Characterization of 582 natural and synthetic terminators and quantification of their design constraints

  Chen, Y., Liu, P., Nielsen, A., Brophy, J., Clancy, K., Peterson, T. and Voigt, C., in 2013

  28 Terminators

• Genomic mining of prokaryotic repressors for orthogonal logic gates

  Stanton, B., Nielsen, A., Tamsir, A., Clancy, K., Peterson, T. and Voigt, C., in 2013

  17 Regulated Promoters

• Design of orthogonal genetic switches based on a crosstalk map of σs, anti‐σs, and promoters

  Rhodius, V., Segall‐Shapiro, T., Sharon, B., Ghodasara, A., Orlova, E., Tabakh, H., Burkhardt, D., Clancy, K., Peterson, T., Gross, C. and Voigt, C., in 2013

  20 Regulated Promoters

• Genetic circuit design automation

  Nielsen, A., Der, B., Shin, J., Vaidyanathan, P., Paralanov, V., Strychalski, E., Ross, D., Densmore, D. and Voigt, C., in 2016

  16 Insulators

• Post-translational control of genetic circuits using Potyvirus proteases

  Fernandez-Rodriguez, J. and Voigt, C., in 2016

  3 Cleavage Tags

• Escherichia coli “Marionette” strains with 12 highly optimized small-molecule sensors

  Meyer, A., Segall-Shapiro, T., Glassey, E., Zhang, J. and Voigt, C., in 2018

  12 Regulated Promoters

• Permanent Genetic Memory With >1-byte Capacity

  Yang, L., Nielsen, A., Fernandez-Rodriguez, J., McClune, C., Laub, M., Lu, T. and Voigt, C., in 2014

  13 Recombinases

• Precision design of stable genetic circuits carried in highly‐insulated E. coli genomic landing pads

  Park, Y., Espah Borujeni, A., Gorochowski, T., Shin, J. and Voigt, C., in 2020

  6 Terminators

Salis Lab

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

  Reis, A., Halper, S., Vezeau, G., Cetnar, D., Hossain, A., Clauer, P. and Salis, H., in 2019

  34 CRISPR Systems

Endy Lab

• Precise and reliable gene expression via standard transcription and translation initiation elements

  Mutalik, V., Guimaraes, J., Cambray, G., Lam, C., Christoffersen, M., Mai, Q., Tran, A., Paull, M., Keasling, J., Arkin, A. and Endy, D., in 2013

  1 Insulator
  70 Ribosome Binding Sites

• Measurement and modeling of intrinsic transcription terminators

  Cambray, G., Guimaraes, J., Mutalik, V., Lam, C., Mai, Q., Thimmaiah, T., Carothers, J., Arkin, A. and Endy, D., in 2013

  16 Terminators

• Amplifying Genetic Logic Gates

  Bonnet, J., Yin, P., Ortiz, M., Subsoontorn, P. and Endy, D., in 2013

  2 Recombinases

Sauer and Baker Lab

• Tuning the Strength of a Bacterial N-end Rule Degradation Signal

  Wang, K., Oakes, E., Sauer, R. and Baker, T., in 2008

  4 Degradation Tags

• Design, construction and characterization of a set of insulated bacterial promoters

  Davis, J., Rubin, A. and Sauer, R., in 2010

  10 Constitutive Promoters

Tabor Lab

• Tabor Lab publications

Freemont Lab

• EcoFlex: A Multifunctional MoClo Kit for E. coli Synthetic Biology

  Moore, S., Lai, H., Kelwick, R., Chee, S., Bell, D., Polizzi, K. and Freemont, P., in 2016

  10 Constitutive Promoters

Lucks Lab

• Computational design of small transcription activating RNAs for versatile and dynamic gene regulation

  Chappell, J., Westbrook, A., Verosloff, M. and Lucks, J., in 2017

  15 Riboregulators

Green Lab

• De novo-designed translation-repressing riboregulators for multi-input cellular logic

  Kim, J., Zhou, Y., Carlson, P., Teichmann, M., Chaudhary, S., Simmel, F., Silver, P., Collins, J., Lucks, J., Yin, P. and Green, A., in 2019

  27 Riboregulators

Lou Lab

• Insulated transcriptional elements enable precise design of genetic circuits

  Zong, Y., Zhang, H., Lyu, C., Ji, X., Hou, J., Guo, X., Ouyang, Q. and Lou, C., in 2017

  8 Regulated Promoters

• De novo design of an intercellular signaling toolbox for multi-channel cell–cell communication and biological computation

  Du, P., Zhao, H., Zhang, H., Wang, R., Huang, J., Tian, Y., Luo, X., Luo, X., Wang, M., Xiang, Y., Qian, L., Chen, Y., Tao, Y. and Lou, C., in 2020

  8 Regulated Promoters

Müller Lab

• Copy number variability of expression plasmids determined by cell sorting and Droplet Digital PCR

  Jahn, M., Vorpahl, C., Hübschmann, T., Harms, H. and Müller, S., in 2016

  7 Origins of Replication

Hasty Lab

• Quorum Sensing Communication Modules for Microbial Consortia

  Scott, S. and Hasty, J., in 2016

  4 Regulated Promoters

Polizzi Lab

• Tools for engineering coordinated system behaviour in synthetic microbial consortia

  Kylilis, N., Tuza, Z., Stan, G. and Polizzi, K., in 2018

  6 Regulated Promoters

Church Lab

• Orthogonal Cas9 proteins for RNrnA-guided gene regulation and editing

  Esvelt, K., Mali, P., Braff, J., Moosburner, M., Yaung, S. and Church, G., in 2013

  4 CRISPR Systems

Forster Lab

• Engineering a palette of eukaryotic chromoproteins for bacterial synthetic biology

  Liljeruhm, J., Funk, S.K., Tietscher, S., Edlund, A.D., Jamal, S., Wistrand-Yuen, P., Dyrhage, K., Gynnå, A., Ivermark, K., Lövgren, J., Törnblom, V., Virtanen, A., Lundin, E.R., Wistrand-Yuen, E. and Forster, A.C., in 2018

  Reporters

Collins Lab

• Tunable protein degradation in bacteria

  Cameron, D. and Collins, J., in 2014

  7 Degradation Tags

Molin Lab

• New Unstable Variants of Green Fluorescent Protein for Studies of Transient Gene Expression in Bacteria

  Andersen, J., Sternberg, C., Poulsen, L., Bjørn, S., Givskov, M. and Molin, S., in 1998

  4 Degradation Tags

Möglich Lab

• From Dusk till Dawn: One-Plasmid Systems for Light-Regulated Gene Expression

  Ohlendorf, R., Vidavski, R., Eldar, A., Moffat, K. and Möglich, A., in 2012

  1 Regulated Promoter

Yang Lab

• A single-component light sensor system allows highly tunable and direct activation of gene expression in bacterial cells

  Li, X., Zhang, C., Xu, X., Miao, J., Yao, J., Liu, R., Zhao, Y., Chen, X. and Yang, Y., in 2020

  1 Regulated Promoter

Wilson Lab

• Engineered systems of inducible anti-repressors for the next generation of biological programming

  Groseclose, T., Rondon, R., Herde, Z., Aldrete, C. and Wilson, C., in 2020

  14 Regulated Promoters