CyGenTiG

Benisch, Moritz, Stephanie K Aoki, and Mustafa Khammash. “Unlocking the Potential of Optogenetics in Microbial Applications.” Current Opinion in Microbiology 77 (2024): 102404. https://doi.org/10.1016/j.mib.2023.102404. Download

Holland, Ian, Wenmiao Shu, and Jamie A Davies. “Stratified Tissue Biofabrication by Rotational Internal Flow Layer Engineering.” Biofabrication 15, no. 4 (October 1, 2023): 045003. https://doi.org/10.1088/1758-5090/ace2ed. Download

Davies, Jamie, and Michael Levin. “Synthetic Morphology with Agential Materials.” Nature Reviews Bioengineering 1, no. 1 (January 19, 2023): 46–59. https://doi.org/10.1038/s44222-022-00001-9. Download

Pleyer, Jonas, and Christian Fleck. “Agent-Based Models in Cellular Systems.” Frontiers in Physics 10 (January 4, 2023): 968409. https://doi.org/10.3389/fphy.2022.968409. Download

Kumar, Sant, Stanislav Anastassov, Stephanie K. Aoki, Johannes Falkenstein, Ching-Hsiang Chang, Timothy Frei, Peter Buchmann, Paul Argast, and Mustafa Khammash. “Diya – A Universal Light Illumination Platform for Multiwell Plate Cultures.” IScience 26, no. 10 (2023): 107862. https://doi.org/10.1016/j.isci.2023.107862. Download

Jang, Jaewan, Kun Tang, Jeffrey Youn, Sherin McDonald, Hannes M. Beyer, Matias D. Zurbriggen, Maruti Uppalapati, and G. Andrew Woolley. “Engineering of Bidirectional, Cyanobacteriochrome-Based Light-Inducible Dimers (BICYCL)s.” Nature Methods 20, no. 3 (2023): 432–41. https://doi.org/10.1038/s41592-023-01764-8. Download

Kumar, Sant, and Mustafa Khammash. “Platforms for Optogenetic Stimulation and Feedback Control.” Frontiers in Bioengineering and Biotechnology 10 (June 8, 2022): 918917. https://doi.org/10.3389/fbioe.2022.918917. Download

Jamie A. Davies. “Synthetic Morphogenesis: Introducing IEEE Journal Readers to Programming Living Mammalian Cells to Make Structures.” Proceedings of the IEEE 110, no. 5 (May 2022): 688–707. https://doi.org/10.1109/JPROC.2021.3137077. Download

McKenzie, Rebecca E, Emma M Keizer, Jochem N A Vink, Jasper van Lopik, Ferhat Büke, Vera Kalkman, Christian Fleck, Sander J Tans, and Stan J J Brouns. “Single Cell Variability of CRISPR‐Cas Interference and Adaptation.” Molecular Systems Biology 18, no. 4 (April 1, 2022). https://doi.org/10.15252/msb.202110680. Download

Kun Tang, Hannes M. Beyer, Matias D. Zurbriggen, and Wolfgang Gärtner. “The Red Edge: Bilin-Binding Photoreceptors as Optogenetic Tools and Fluorescence Reporters.” Chemical Reviews 121, no. 24 (December 22, 2021): 14906–56. https://doi.org/10.1021/acs.chemrev.1c00194. Download

Kumar, Sant, Marc Rullan, and Mustafa Khammash. “Rapid Prototyping and Design of Cybergenetic Single-Cell Controllers.” Nature Communications 12, no. 1 (September 24, 2021): 5651. https://doi.org/10.1038/s41467-021-25754-6. Download

Jamie A. Davies, Mona Elhendawi, Anwar A. Palakkan, and May Sallam. “Renal Engineering: Strategies to Address the Problem of the Ureter.” Current Opinion in Biomedical Engineering 20 (2021): 100334. https://doi.org/10.1016/j.cobme.2021.100334. Download

Romano, Edoardo, Armin Baumschlager, Emir Bora Akmeriç, Navaneethan Palanisamy, Moustafa Houmani, Gregor Schmidt, Mehmet Ali Öztürk, Leonard Ernst, Mustafa Khammash, and Barbara Di Ventura. “Engineering AraC to Make It Responsive to Light Instead of Arabinose.” Nature Chemical Biology 17, no. 7 (2021): 817–27. https://doi.org/10.1038/s41589-021-00787-6. Download

Blomeier, Tim, Patrick Fischbach, Leonie‐Alexa Koch, Jennifer Andres, Miguel Miñambres, Hannes Michael Beyer, and Matias Daniel Zurbriggen. “Blue Light‐Operated CRISPR/Cas13b‐Mediated MRNA Knockdown (Lockdown).” Advanced Biology 5, no. 5 (2021): 2000307. https://doi.org/10.1002/adbi.202000307. Download

Baumschlager, Armin, and Mustafa Khammash. “Synthetic Biological Approaches for Optogenetics and Tools for Transcriptional Light‐Control in Bacteria.” Advanced Biology 5, no. 5 (2021): 2000256. https://doi.org/10.1002/adbi.202000256. Download

Christie, John M., and Matias D. Zurbriggen. “Optogenetics in Plants.” New Phytologist 229, no. 6 (2021): 3108–15. https://doi.org/10.1111/nph.17008. Download

Baumschlager, Armin, Marc Rullan, and Mustafa Khammash. “Exploiting Natural Chemical Photosensitivity of Anhydrotetracycline and Tetracycline for Dynamic and Setpoint Chemo-Optogenetic Control.” Nature Communications 11, no. 1 (July 31, 2020): 3834. https://doi.org/10.1038/s41467-020-17677-5. Download

Ochoa-Fernandez, Rocio, Nikolaj B. Abel, Franz-Georg Wieland, Jenia Schlegel, Leonie-Alexa Koch, J. Benjamin Miller, Raphael Engesser, et al. “Optogenetic Control of Gene Expression in Plants in the Presence of Ambient White Light.” Nature Methods 17, no. 7 (July 2020): 717–25. https://doi.org/10.1038/s41592-020-0868-y. Download

Perkins, Melinda Liu, Dirk Benzinger, Murat Arcak, and Mustafa Khammash. “Cell-in-the-Loop Pattern Formation with Optogenetically Emulated Cell-to-Cell Signaling.” Nature Communications 11, no. 1 (March 13, 2020): 1355. https://doi.org/10.1038/s41467-020-15166-3. Download

Kahle, Nikolai, David J. Sheerin, Patrick Fischbach, Leonie‐Alexa Koch, Philipp Schwenk, Dorothee Lambert, Ryan Rodriguez, et al. “COLD REGULATED 27 and 28 Are Targets of CONSTITUTIVELY PHOTOMORPHOGENIC 1 and Negatively Affect Phytochrome B Signalling.” The Plant Journal 104, no. 4 (2020): 1038–53. https://doi.org/10.1111/tpj.14979. Download

Fischbach, Patrick, Patrick Gonschorek, Julia Baaske, Jamie A. Davies, Wilfried Weber, and Matias D. Zurbriggen. “Optogenetic Downregulation of Protein Levels to Control Programmed Cell Death in Mammalian Cells with a Dual Blue-Light Switch.” In Photoswitching Proteins, edited by Dominik Niopek, 2173:159–70. New York, NY: Springer US, 2020. https://doi.org/10.1007/978-1-0716-0755-8_11. Download

Golonka, David, et al. “Deconstructing and Repurposing the Light-Regulated Interplay between Arabidopsis Phytochromes and Interacting Factors.” Communications Biology, vol. 2, no. 1, Dec. 2019, p. 448, https://doi.org/10.1038/s42003-019-0687-9. Download