Vesna Bacheva, Fulton Rockwell, Jean-Baptiste Salmon, Jesse Woodson, Margaret Frank, and Abraham Stroock (October 2024) “A unified framework for hydromechanical signaling: Do plant signals go with the flow?”, bioRxiv. https://doi.org/10.1101/2024.10.23.619842
2024
Peer Reviewed Publications
Tegan Wilson, Daniel Amir, Nitika Saran, Robert Kleinberg, Vishal Shrivastav, and Hakim Weatherspoon. (2024). “Breaking the VLB Barrier for Oblivious Reconfigurable Networks.” Proceedings of the 56th Annual ACM Symposium on Theory of Computing. https://doi.org/10.1145/3618260.3649608
Christenson, Clay G.; Mohammad R. Gohardoust; Sebastian Calleja; Kelly R. Thorp; Markus Tuller; and Duke Pauli. (2024). “Monitoring Cotton Water Status with Microtensiometers.” Irrigation Science. https://doi.org/10.1007/s00271-024-00930-w
Eken, G. A.; Huang, Y. M.; Prucker, O.; Rühe, J.; & Ober, C. (2024). “Advancing Glucose Sensing Through Auto-Fluorescent Polymer Brushes: From Surface Design to Nano-Arrays.” Small. https://doi.org/10.1002/smll.202309040
Lemke, M. D.; and Woodson, J. D. (2024). “A Genetic Screen for Dominant Chloroplast Reactive Oxygen Species Signaling Mutants Reveals Life Stage-specific Singlet Oxygen Signaling Networks.” Front. Plant Sci. https://doi.org/10.3389/fpls.2023.1331346
Jain, Piyush; Annika E. Huber; Fulton E. Rockwell; Sabyasachi Sen; Noel Michele Holbrook; and Abraham D. Stroock. (2024). “Localized Measurements of Water Potential Reveal Large Loss of Conductance in Living Tissues of Maize Leaves.” Plant Physiology 194. doi.org/10.1093/plphys/kiad679
Jain, Piyush; Annika E. Huber; Fulton E. Rockwell; Sabyasachi Sen; N. Michele Holbrook; and Abraham D. Stroock. (2024). “New Approaches to Dissect Leaf Hydraulics Reveal Large Gradients in Living Tissues of Tomato Leaves.” New Phytologist. https://doi.org/10.1111/nph.19585
Matthew D. Lemke; Alexa N. Abate; and Jesse D. Woodson. (2024). “Investigating the mechanism of chloroplast singlet oxygen signaling in the Arabidopsis thaliana accelerated cell death 2 mutant.” Plant Signaling & Behavior. doi.org/10.1080/15592324.2024.2347783
Shiang-Wan Chin, Gloire Rubambiza, Yifan Zhao, Keyvan Malek, Hakim Weatherspoon. (2024). “Realtime optimization and management system (ROAM): A decision support system for digital agriculture systems.” Smart Agricultural Technology. doi.org/10.1016/j.atech.2024.100452
Jianing Han, Emma Parker Miller, Sijin Li. (2024). “Cutting-edge plant natural product pathway elucidation.” Current Opinion In Biotechnology. DOI: 10.1016/j.copbio.2024.103137
Gloire Rubambiza, Phoebe Sengers, Hakim Weatherspoon, Jen Liu. (2024). “SeamWork and Simulacra of Societal Impact in Networking Research: A Critical Technical Practice Approach.” Proceedings of the 2024 CHI Conference on Human Factors in Computing Systems. https://doi.org/10.1145/3613904.3642337
Daniel Amir, Nitika Saran, Tegan Wilson, Robert Kleinberg, Vishal Shrivastav, Hakim Weatherspoon. (2024). “Shale: A Practical, Scalable Oblivious Reconfigurable Network.” Proceedings of the ACM SIGCOMM 2024 Conference. https://doi.org/10.1145/3651890.367224
William L King, Regan J Hayward, Marc Goebel, Suzanne M Fleishman, Taryn L Bauerle, Terrence H Bell. (2024). “Getting to the root of root–microbe interactions.” Science Progress. https://doi.org/10.1177/0036850424127878
Yifan Li, Giulia Guidi. (2024). “High-Performance Sorting-Based K-mer Counting in Distributed Memory with Flexible Hybrid Parallelism.” ICPP ’24: Proceedings of the 53rd International Conference on Parallel Processing.
https://doi.org/10.1145/3673038.3673072
2023
Peer Reviewed Publications
G. A. Eken, Y. M. Huang, Y. X. Guo, and C. Ober (2023). “Visualization of the pH Response through Autofluorescent Poly(styrene-alt-N-maleimide) Polyelectrolyte Brushes.” ACS Appl. Polym. Mater. https://doi.org/10.1021/acsapm.2c02066.
G. A. Eken, F. Kafer, C. Y. Yuan, I. Andrade, and C. K. Ober (2023) “Synthesis of N-Substituted Maleimides and Poly(styrene-co-N-maleimide) Copolymers and Their Potential Application as Photoresists.” Macromol. Chem. Phys. https://doi.org/10.1002/macp.202200256.
J. N. Han and S. J. Li (2023) “De novo biosynthesis of berberine and halogenated benzylisoquinoline alkaloids in Saccharomyces cerevisiae.” Comm. Chem., 10.1038/s42004-023-00821-9.
M. Heeney and M. H. Frank (2023) “The mRNA mobileome: Challenges and opportunities for deciphering signals from the noise.” The Plant Cell. https://doi.org/10.1093/plcell/koad063
R. Sanghvi, Kuo, J., Ravi, A. and Lal, A. (2023) “Towards Ultra-High Spatial Resolution Sensing of GHz Ultrasound Using Strain Modulation of Field Effect Transistors.” IEEE 36th International Conference on Micro Electro Mechanical Systems (MEMS) https://doi.org/10.1109/MEMS49605.2023.10052433.
T. Wilson, Amir, D., Shrivastav, V., Weatherspoon, H. and Kleinberg, R. (2023) “Extending Optimal Oblivious Reconfigurable Networks to all N.” Symposium on Algorithmic Principles of Computer Systems (APOCS) Society for Industrial and Applied Mathematics. https://doi.org/10.1137/1.9781611977578.ch1.
S. Wong, C. C. Tamarit, and J. F. Martínez (2023) “PUMICE: Processing-using-memory integration with a scalar pipeline for symbiotic execution.” Design Automation Conference (DAC), Association for Computing Machinery (ACM). DOI: 10.1109/DAC56929.2023.10247818
Y. Wu, Liu, C., Gong, F. and Li, S. (2023). “Discovering dynamic plant enzyme complexes in yeast for novel alkaloid pathway identification from a medicinal plant kratom.” Angewandte Chemie. doi.org/10.1002/anie.202307995
Y. Wu, F. L. Gong, and S. Li (2023) “Leveraging yeast to characterize plant biosynthetic gene clusters.” Current Opinion in Plant Biology. https://doi.org/10.1016/j.pbi.2022.102314
Books and Book Chapters
J. D. Woodson, M. D. Lemke, D. Tano, and S. Rai, “Chloroplast Signals and Their Effect on Nuclear Stress Gene Regulation, Cell Death, and Cellular Degradation Pathways,” in Nucleic Acids and Molecular Biology: Springer Submitted 2023.
2022
Peer Reviewed Publications
D. Amir, T. Wilson, V. Shrivastav, H. Weatherspoon, R. Kleinberg, and R. Agarwal (2022). “Optimal Oblivious Reconfigurable Networks.” 54th Annual ACM SIGACT Symposium on Theory of Computing (STOC), Rome, ITALY. NEW YORK: Assoc Computing Machinery, in Annual ACM Symposium on Theory of Computing. https://doi.org/10.1145/3519935.3520020.
F. L. Gong, J. N. Han, and S. J. Li (2022). “MULTI-SCULPT: Multiplex Integration via Selective, CRISPR-Mediated, Ultralong Pathway Transformation in Yeast for Plant Natural Product Synthesis.” ACS Synth. Biol. https://doi.org/10.1021/acssynbio.2c00135.
M. D. Lemke and J. D. Woodson (2022). “Targeted for destruction: degradation of singlet oxygen-damaged chloroplasts.” Plant Signal. Behav. https://doi.org/10.1080/15592324.2022.2084955.
C. Liu and S. J. Li (2022). “Engineered biosynthesis of plant polyketides by type III polyketide synthases in microorganisms.” Front. Bioeng. Biotechnol., Review. https://doi.org/10.3389/fbioe.2022.1017190.
J. A. Noble, Bielski, N.V., Liu, M.C.J., DeFalco, T.A., Stegmann, M., Nelson, A.D., McNamara, K., Sullivan, B., Dinh, K.K., Khuu, N. and Hancock, S. (2022). “Evolutionary analysis of the LORELEI gene family in plants reveals regulatory subfunctionalization.” Plant Physiol. https://doi.org/10.1093/plphys/kiac444.
G. Rubambiza, F. Romero Galvan, R. Pavlick, H. Weatherspoon, and K. M. Gold (2022). “Towards Cloud-Native, Machine Learning Based Detection of Crop Disease with Imaging Spectroscopy.” bioRxiv. https://doi.org/10.1101/2022.12.15.520316.
G. Rubambiza, P. Sengers, and H. Weatherspoon (2022). “Seamless Visions, Seamful Realities: Anticipating Rural Infrastructural Fragility in Early Design of Digital Agriculture.” ACM CHI Conference on Human Factors in Computing Systems Association for Computing Machinery. doi/10.1145/3491102.3517579
R. Sanghvi, J. Kuo, and A. Lal (2022). “Liquid Layer Evolution Characterization using GHz Ultrasonic Pulses: Linear and Nonlinear Effects.” Acoustofluidics, Chemical and Biological Microsystems Society. https://acoustofluidics.net/archive/materials/Acoustofluidics_2022_Materials.pdf
Y. A. Wu, M. N. Chen, and S. J. Li, (2022). “De novo biosynthesis of diverse plant-derived styrylpyrones in Saccharomyces cerevisiae.” Metab. Eng. Commun. https://doi.org/10.1016/j.mec.2022.e00195.
Non-Peer Reviewed Publications
The CROPPS Research Community (2022). “Digital Biology to Enable Sustainable and Resilient Agriculture.” The Bridge (NAE). https://www.nae.edu/276545/Digital-Biology-to-Enable-Sustainable-and-Resilient-Agriculture
