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Research Areas

Biosystems Design: Publications

Xu, W., Klumbys, E., Ang, E. L., & Zhao, H. (2020). Emerging molecular biology tools and strategies for engineering natural product biosynthesis. Metabolic Engineering Communications, 10, [e00108]. https://doi.org/10.1016/j.mec.2019.e00108

Zhang, S., Zhang, C., Chen, H., Kieffer, S. J., Neubrech, F., Giessen, H., ... Braun, P. V. (2019). Selective Autonomous Molecular Transport and Collection by Hydrogel-Embedded Supramolecular Chemical Gradients. Angewandte Chemie - International Edition, 58(50), 18165-18170. https://doi.org/10.1002/anie.201908647

Hillson, N., Caddick, M., Cai, Y., Carrasco, J. A., Chang, M. W., Curach, N. C., ... Freemont, P. S. (2019). Author Correction: Building a global alliance of biofoundries (Nature Communications, (2019), 10, 1, (2040), 10.1038/s41467-019-10079-2). Nature communications, 10(1), [3132]. https://doi.org/10.1038/s41467-019-10862-1

Hillson, N., Caddick, M., Cai, Y., Carrasco, J. A., Chang, M. W., Curach, N. C., ... Freemont, P. S. (2019). Building a global alliance of biofoundries. Nature communications, 10(1), [2040]. https://doi.org/10.1038/s41467-019-10079-2

Liu, K., Pan, C., Kuhn, A., Nievergelt, A. P., Fantner, G. E., Milenkovic, O., & Radenovic, A. (2019). Detecting topological variations of DNA at single-molecule level. Nature communications, 10(1), [3]. https://doi.org/10.1038/s41467-018-07924-1

Lee, J., Schwieter, K. E., Watkins, A. M., Kim, D. S., Yu, H., Schwarz, K. J., ... Jewett, M. C. (2019). Expanding the limits of the second genetic code with ribozymes. Nature communications, 10(1), [5097]. https://doi.org/10.1038/s41467-019-12916-w

Zhang, J., Fengler, K. A., Van Hemert, J. L., Gupta, R., Mongar, N., Sun, J., ... Shen, B. (2019). Identification and characterization of a novel stay-green QTL that increases yield in maize. Plant Biotechnology Journal, 17(12), 2272-2285. https://doi.org/10.1111/pbi.13139

Zhang, P., Moye, L. S., Southey, B. R., Dripps, I., Sweedler, J. V., Pradhan, A., & Rodriguez-Zas, S. L. (2019). Opioid-Induced Hyperalgesia Is Associated with Dysregulation of Circadian Rhythm and Adaptive Immune Pathways in the Mouse Trigeminal Ganglia and Nucleus Accumbens. Molecular Neurobiology, 56(12), 7929-7949. https://doi.org/10.1007/s12035-019-01650-5

Liu, J. J., Zhang, G. C., Kwak, S., Oh, E. J., Yun, E. J., Chomvong, K., ... Jin, Y-S. (2019). Overcoming the thermodynamic equilibrium of an isomerization reaction through oxidoreductive reactions for biotransformation. Nature communications, 10(1), [1356]. https://doi.org/10.1038/s41467-019-09288-6

Anapindi, K. D. B., Yang, N., Romanova, E. V., Rubakhin, S. S., Tipton, A., Dripps, I., ... Pradhan, A. A. (2019). PACAP and Other Neuropeptide Targets Link Chronic Migraine and Opioid-induced Hyperalgesia in Mouse Models. Molecular & cellular proteomics : MCP, 18(12), 2447-2458. https://doi.org/10.1074/mcp.RA119.001767

Xing, M., Wei, Y., Zhou, Y., Zhang, J., Lin, L., Hu, Y., ... Zhang, Y. (2019). Radical-mediated C-S bond cleavage in C2 sulfonate degradation by anaerobic bacteria. Nature communications, 10(1), [1609]. https://doi.org/10.1038/s41467-019-09618-8

Thomey, M. L., Slattery, R. A., Köhler, I. H., Bernacchi, C. J., & Ort, D. R. (2019). Yield response of field-grown soybean exposed to heat waves under current and elevated [CO2]. Global change biology, 25(12), 4352-4368. https://doi.org/10.1111/gcb.14796

Dinh, H. V., Suthers, P. F., Chan, S. H. J., Shen, Y., Xiao, T., Deewan, A., ... Maranas, C. D. (2019). A comprehensive genome-scale model for Rhodosporidium toruloides IFO0880 accounting for functional genomics and phenotypic data. Metabolic Engineering Communications, 9, [e00101]. https://doi.org/10.1016/j.mec.2019.e00101

Zaouri, N., Cui, Z., Peinetti, A. S., Lu, Y., & Hong, P. Y. (2019). DNAzyme-based biosensor as a rapid and accurate verification tool to complement simultaneous enzyme-based media for: E. Coli detection. Environmental Science: Water Research and Technology, 5(12), 2260-2268. https://doi.org/10.1039/c9ew00795d

Cheng, H., Cheng, D., Mao, J., Lu, T., & Hong, P. Y. (2019). Identification and characterization of core sludge and biofilm microbiota in anaerobic membrane bioreactors. Environment International, 133, [105165]. https://doi.org/10.1016/j.envint.2019.105165

You, S., Barkalifa, R., Chaney, E. J., Tu, H., Park, J., Sorrells, J. E., ... Boppart, S. A. (2019). Label-free visualization and characterization of extracellular vesicles in breast cancer. Proceedings of the National Academy of Sciences of the United States of America, 116(48), 24012-24018. https://doi.org/10.1073/pnas.1909243116

Lin, Y., Yang, Z., Lake, R. J., Zheng, C., & Lu, Y. (2019). Enzyme-Mediated Endogenous and Bioorthogonal Control of a DNAzyme Fluorescent Sensor for Imaging Metal Ions in Living Cells. Angewandte Chemie - International Edition, 58(47), 17061-17067. https://doi.org/10.1002/anie.201910343

HamediRad, M., Chao, R., Weisberg, S., Lian, J., Sinha, S., & Zhao, H. (2019). Towards a fully automated algorithm driven platform for biosystems design. Nature communications, 10(1), [5150]. https://doi.org/10.1038/s41467-019-13189-z

Xia, L., Han, M. J., Zhou, L., Huang, A., Yang, Z., Wang, T., ... Wang, J. (2019). S-Click Reaction for Isotropic Orientation of Oxidases on Electrodes to Promote Electron Transfer at Low Potentials. Angewandte Chemie - International Edition, 58(46), 16480-16484. https://doi.org/10.1002/anie.201909203

Sweedler, J. V. (2019). Welcome JASMS to the ACS Measurement Science Family. Analytical chemistry, 91(21). https://doi.org/10.1021/acs.analchem.9b04705

Kuzi, S., Labhishetty, S., Santu, S. K. K., Joshi, P. P., & Zhai, C. X. (2019). Analysis of adaptive training for learning to rank in information retrieval. In CIKM 2019 - Proceedings of the 28th ACM International Conference on Information and Knowledge Management (pp. 2325-2328). (International Conference on Information and Knowledge Management, Proceedings). Association for Computing Machinery. https://doi.org/10.1145/3357384.3358159

Huang, Z., Liu, Q., Zhai, C., Yin, Y., Chen, E., Gao, W., & Hu, G. (2019). Exploring multi-objective exercise recommendations in online education systems. In CIKM 2019 - Proceedings of the 28th ACM International Conference on Information and Knowledge Management (pp. 1261-1270). (International Conference on Information and Knowledge Management, Proceedings). Association for Computing Machinery. https://doi.org/10.1145/3357384.3357995

Fasan, R., Jennifer Kan, S. B., & Zhao, H. (2019). A continuing career in biocatalysis: Frances H. Arnold. ACS Catalysis, 9(11), 9775-9788. https://doi.org/10.1021/acscatal.9b02737

Schwarz, E. M., & Ort, D. R. (2019). Economical synthesis of 14C-labeled aminolevulinic acid for specific in situ labeling of plant tetrapyrroles. Photosynthesis research, 142(2), 241-247. https://doi.org/10.1007/s11120-019-00654-5

Park, H. M., Satta, R., Davis, R. G., Goo, Y. A., Leduc, R. D., Fellers, R. T., ... Lasek, A. W. (2019). Multidimensional Top-Down Proteomics of Brain-Region-Specific Mouse Brain Proteoforms Responsive to Cocaine and Estradiol. Journal of Proteome Research, 18(11), 3999-4012. https://doi.org/10.1021/acs.jproteome.9b00481

Clark, L. V., Jin, X., Petersen, K. K., Anzoua, K. G., Bagmet, L., Chebukin, P., ... Sacks, E. J. (2019). Population structure of Miscanthus sacchariflorus reveals two major polyploidization events, tetraploid-mediated unidirectional introgression from diploid M. sinensis, and diversity centred around the Yellow Sea. Annals of botany, 124(4), 731-748. https://doi.org/10.1093/aob/mcy161

Hwang, K., Mou, Q., Lake, R. J., Xiong, M., Holland, B., & Lu, Y. (2019). Metal-Dependent DNAzymes for the Quantitative Detection of Metal Ions in Living Cells: Recent Progress, Current Challenges, and Latest Results on FRET Ratiometric Sensors. Inorganic Chemistry, 58(20), 13696-13708. https://doi.org/10.1021/acs.inorgchem.9b01280

Jagtap, S. S., Bedekar, A. A., Liu, J. J., Jin, Y. S., & Rao, C. V. (2019). Production of galactitol from galactose by the oleaginous yeast Rhodosporidium toruloides IFO0880. Biotechnology for Biofuels, 12(1), [250]. https://doi.org/10.1186/s13068-019-1586-5

Jiang, X., Halmes, A. J., Licari, G., Smith, J. W., Song, Y., Moore, E. G., ... Moore, J. S. (2019). Multivalent Polymer-Peptide Conjugates: A General Platform for Inhibiting Amyloid Beta Peptide Aggregation. ACS Macro Letters, 8(10), 1365-1371. https://doi.org/10.1021/acsmacrolett.9b00559

Kim, J. W., Lee, Y. G., Kim, S. J., Jin, Y-S., & Seo, J. H. (2019). Deletion of glycerol-3-phosphate dehydrogenase genes improved 2,3-butanediol production by reducing glycerol production in pyruvate decarboxylase-deficient Saccharomyces cerevisiae. Journal of Biotechnology, 304, 31-37. https://doi.org/10.1016/j.jbiotec.2019.08.009

Li, S., Yu, H., Schwieter, K., Chen, K., Li, B., Liu, Y., ... Schroeder, C. M. (2019). Charge Transport and Quantum Interference Effects in Oxazole-Terminated Conjugated Oligomers. Journal of the American Chemical Society, 141(40), 16079-16084. https://doi.org/10.1021/jacs.9b08427

Xu, H., Liu, J. J., Liu, Z., Li, Y., Jin, Y. S., & Zhang, J. (2019). Synchronization of stochastic expressions drives the clustering of functionally related genes. Science Advances, 5(10), [aax6525]. https://doi.org/10.1126/sciadv.aax6525

Brown, N. M., Mendenhall, R., Black, M., Moer, M. V., Flynn, K., McKee, M., ... Zhai, C. X. (2019). In Search of Zora/When Metadata Isn’t Enough: Rescuing the Experiences of Black Women Through Statistical Modeling. Journal of Library Metadata, 19(3-4), 141-162. https://doi.org/10.1080/19386389.2019.1652967

Kim, H. J., Lee, W. H., Turner, T. L., Kwak, S., & Jin, Y. S. (2019). An extra copy of the β-glucosidase gene improved the cellobiose fermentation capability of an engineered Saccharomyces cerevisiae strain. 3 Biotech, 9(10), [367]. https://doi.org/10.1007/s13205-019-1899-x

Herber, D. R., & Allison, J. (2019). A Problem Class with Combined Architecture, Plant, and Control Design Applied to Vehicle Suspensions. Journal of Mechanical Design, Transactions of the ASME, 141(10), [101401]. https://doi.org/10.1115/1.4043312

Clark, L. V., Dwiyanti, M. S., Anzoua, K. G., Brummer, J. E., Ghimire, B. K., Głowacka, K., ... Sacks, E. J. (2019). Biomass yield in a genetically diverse Miscanthus sinensis germplasm panel evaluated at five locations revealed individuals with exceptional potential. GCB Bioenergy, 11(10), 1125-1145. https://doi.org/10.1111/gcbb.12606

Slattery, R. A., & Ort, D. R. (2019). Carbon assimilation in crops at high temperatures. Plant Cell and Environment, 42(10), 2750-2758. https://doi.org/10.1111/pce.13572

Canady, T. D., Li, N., Smith, L. D., Lu, Y., Kohli, M., Smith, A. M., & Cunningham, B. T. (2019). Digital-resolution detection of microRNA with singlebase selectivity by photonic resonator absorption microscopy. Proceedings of the National Academy of Sciences of the United States of America, 116(39), 19362-19367. https://doi.org/10.1073/pnas.1904770116

Wang, W., Yu, S., Huang, S., Bi, S., Han, H., Zhang, J. R., ... Zhu, J. J. (2019). Bioapplications of DNA nanotechnology at the solid-liquid interface. Chemical Society Reviews, 48(18), 4892-4920. https://doi.org/10.1039/c8cs00402a

Sun, L., Kwak, S., & Jin, Y. S. (2019). Vitamin A Production by Engineered Saccharomyces cerevisiae from Xylose via Two-Phase in Situ Extraction. ACS synthetic biology, 8(9), 2131-2140. https://doi.org/10.1021/acssynbio.9b00217

Zhang, Y., Lane, S., Chen, J. M., Hammer, S. K., Luttinger, J., Yang, L., ... Avalos, J. L. (2019). Xylose utilization stimulates mitochondrial production of isobutanol and 2-methyl-1-butanol in Saccharomyces cerevisiae. Biotechnology for Biofuels, 12(1), [223]. https://doi.org/10.1186/s13068-019-1560-2

Lutz, J. P., Davydovich, O., Hannigan, M. D., Moore, J. S., Zimmerman, P. M., & McNeil, A. J. (2019). Functionalized and Degradable Polyphthalaldehyde Derivatives. Journal of the American Chemical Society, 141(37), 14544-14548. https://doi.org/10.1021/jacs.9b07508

Li, L., Xing, H., Zhang, J., & Lu, Y. (2019). Functional DNA Molecules Enable Selective and Stimuli-Responsive Nanoparticles for Biomedical Applications. Accounts of chemical research, 52(9), 2415-2426. https://doi.org/10.1021/acs.accounts.9b00167

Kim, S. Y., Harvey, C. M., Giese, J., Lassowskat, I., Singh, V., Cavanagh, A. P., ... Huber, S. C. (2019). In vivo evidence for a regulatory role of phosphorylation of Arabidopsis Rubisco activase at the Thr78 site. Proceedings of the National Academy of Sciences of the United States of America, 116(37), 18723-18731. https://doi.org/10.1073/pnas.1812916116

Ekman, F. K., Ojala, D. S., Adil, M. M., Lopez, P. A., Schaffer, D. V., & Gaj, T. (2019). CRISPR-Cas9-Mediated Genome Editing Increases Lifespan and Improves Motor Deficits in a Huntington's Disease Mouse Model. Molecular Therapy - Nucleic Acids, 17, 829-839. https://doi.org/10.1016/j.omtn.2019.07.009

Hamed, S., Wang, X., Shawky, R. M., Emara, M., Aldridge, P. D., & Rao, C. V. (2019). Synergistic action of SPI-1 gene expression in Salmonella enterica serovar typhimurium through transcriptional crosstalk with the flagellar system. BMC microbiology, 19(1). https://doi.org/10.1186/s12866-019-1583-7

Sweedler, J. V. (2019). What Does Your Future Academic Productivity Depend On? Analytical chemistry, 91(17). https://doi.org/10.1021/acs.analchem.9b03762

Finley, J., Jaacks, L. M., Peters, C. J., Ort, D. R., Aimone, A. M., Conrad, Z., & Raiten, D. J. (2019). Perspective: Understanding the Intersection of Climate/Environmental Change, Health, Agriculture, and Improved Nutrition - A Case Study: Type 2 Diabetes. Advances in Nutrition, 10(5), 731-738. https://doi.org/10.1093/advances/nmz035

Salazar-Herran, E., Martin-Escudero, K., Alleyne, A. G., del Portillo-Valdes, L. A., & Romero-Anton, N. (2019). Numerical model for liquid-to-liquid heat pumps implementing switching mode. Applied Thermal Engineering, 160, [114054]. https://doi.org/10.1016/j.applthermaleng.2019.114054

Turner, T. L., Lane, S., Jayakody, L. N., Zhang, G. C., Kim, H., Cho, W., & Jin, Y. S. (2019). Deletion of JEN1 and ADY2 reduces lactic acid yield from an engineered Saccharomyces cerevisiae, in xylose medium, expressing a heterologous lactate dehydrogenase. FEMS yeast research, 19(6), [foz050]. https://doi.org/10.1093/femsyr/foz050

Xing, M., Wei, Y., Hua, G., Li, M., Nanjaraj Urs, A. N., Wang, F., ... Zhang, Y. (2019). A gene cluster for taurine sulfur assimilation in an anaerobic human gut bacterium. Biochemical Journal, 476(15), 2271-2279. https://doi.org/10.1042/BCJ20190486

Sweedler, J. V. (2019). Avoiding a Retraction: Some Simple Guidelines on What NOT to Do. Analytical chemistry, 91(15), 9331-9332. https://doi.org/10.1021/acs.analchem.9b03257

Hu, W., Lei, L., Xie, X., Huang, L., Cui, Q., Dang, T., ... Zhou, Z. (2019). Heterogeneous nuclear ribonucleoprotein L facilitates recruitment of 53BP1 and BRCA1 at the DNA break sites induced by oxaliplatin in colorectal cancer. Cell Death and Disease, 10(8), [550]. https://doi.org/10.1038/s41419-019-1784-x

Peddada, S. R. T., Herber, D. R., Pangborn, H. C., Alleyne, A. G., & Allison, J. (2019). Optimal flow control and single split architecture exploration for fluid-based thermal management. Journal of Mechanical Design, Transactions of the ASME, 141(8), [083401]. https://doi.org/10.1115/1.4043203

Patterson, A. E., Chadha, C., Jasiuk, I. M., & Allison, J. (2019). Design and repeatability analysis of desktop tool for rapid pre-cracking of notched ductile plastic fracture specimens. Engineering Fracture Mechanics, 217, [106536]. https://doi.org/10.1016/j.engfracmech.2019.106536

Schultz, J. C., Cao, M., & Zhao, H. (2019). Development of a CRISPR/Cas9 system for high efficiency multiplexed gene deletion in Rhodosporidium toruloides. Biotechnology and bioengineering, 116(8), 2103-2109. https://doi.org/10.1002/bit.27001

Clark, L. V., Dwiyanti, M. S., Anzoua, K. G., Brummer, J. E., Ghimire, B. K., Głowacka, K., ... Sacks, E. J. (2019). Genome-wide association and genomic prediction for biomass yield in a genetically diverse Miscanthus sinensis germplasm panel phenotyped at five locations in Asia and North America. GCB Bioenergy, 11(8), 988-1007. https://doi.org/10.1111/gcbb.12620

Dong, H., Clark, L. V., Lipka, A. E., Brummer, J. E., Głowacka, K., Hall, M. C., ... Sacks, E. J. (2019). Winter hardiness of Miscanthus (III): Genome-wide association and genomic prediction for overwintering ability in Miscanthus sinensis. GCB Bioenergy, 11(8), 930-955. https://doi.org/10.1111/gcbb.12615

Xie, X., Hanson, C., & Sinha, S. (2019). Mechanistic interpretation of non-coding variants for discovering transcriptional regulators of drug response. BMC biology, 17(1), [62]. https://doi.org/10.1186/s12915-019-0679-8

Kuzi, S., Pampari, A., Narwekar, A., & Zhai, C. X. (2019). Help me search: Leveraging user-system collaboration for query construction to improve accuracy for difficult queries. In SIGIR 2019 - Proceedings of the 42nd International ACM SIGIR Conference on Research and Development in Information Retrieval (pp. 1221-1224). (SIGIR 2019 - Proceedings of the 42nd International ACM SIGIR Conference on Research and Development in Information Retrieval). Association for Computing Machinery, Inc. https://doi.org/10.1145/3331184.3331362

Liu, H., Wei, H., & Moore, J. S. (2019). Frontal Ring-Opening Metathesis Copolymerization: Deviation of Front Velocity from Mixing Rules. ACS Macro Letters, 8(7), 846-851. https://doi.org/10.1021/acsmacrolett.9b00367

Lee, Y. H., Schuh, J. K., Ewoldt, R. H., & Allison, J. (2019). Simultaneous design of non-Newtonian lubricant and surface texture using surrogate-based multiobjective optimization. Structural and Multidisciplinary Optimization, 60(1), 99-116. https://doi.org/10.1007/s00158-019-02201-1

Neumann, E. K., Do, T. D., Comi, T. J., & Sweedler, J. V. (2019). Exploring the Fundamental Structures of Life: Non-Targeted, Chemical Analysis of Single Cells and Subcellular Structures. Angewandte Chemie - International Edition, 58(28), 9348-9364. https://doi.org/10.1002/anie.201811951

Shin, M., Kim, J. W., Ye, S., Kim, S., Jeong, D., Lee, D. Y., ... Kim, S. R. (2019). Comparative global metabolite profiling of xylose-fermenting Saccharomyces cerevisiae SR8 and Scheffersomyces stipitis. Applied Microbiology and Biotechnology, 103(13), 5435-5446. https://doi.org/10.1007/s00253-019-09829-5

Sweedler, J. V. (2019). Reproducibility and Replicability. Analytical chemistry, 91(13), 7971-7972. https://doi.org/10.1021/acs.analchem.9b02719

Schmidt, J. A., McGrath, J. M., Hanson, M. R., Long, S. P., & Ahner, B. A. (2019). Field-grown tobacco plants maintain robust growth while accumulating large quantities of a bacterial cellulase in chloroplasts. Nature Plants, 5(7), 715-721. https://doi.org/10.1038/s41477-019-0467-z

Corray, S., Utterback, P., Ramchandran, D., Singh, V., Moose, S. P., & Parsons, C. M. (2019). Nutritional evaluation of 3 types of novel ethanol coproducts. Poultry science, 98(7), 2933-2939. https://doi.org/10.3382/ps/pez043

Kromdijk, J., Głowacka, K., & Long, S. P. (2019). Predicting light-induced stomatal movements based on the redox state of plastoquinone: theory and validation. Photosynthesis research, 141(1), 83-97. https://doi.org/10.1007/s11120-019-00632-x

Pangborn, H. C., & Alleyne, A. G. (2019). Cooperativity and hierarchical MPC of state-constrained switched power flow systems. In 2019 American Control Conference, ACC 2019 (pp. 4245-4252). [8815363] (Proceedings of the American Control Conference; Vol. 2019-July). Institute of Electrical and Electronics Engineers Inc..

Kostochka, A. V., Liu, X., Machado, R., & Milenkovic, O. (2019). Directed Intersection Representations and the Information Content of Digraphs. In 2019 IEEE International Symposium on Information Theory, ISIT 2019 - Proceedings (pp. 1477-1481). [8849253] (IEEE International Symposium on Information Theory - Proceedings; Vol. 2019-July). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/ISIT.2019.8849253

Aksland, C. T., Bixel, T. W., Raymond, L. C., Rottmayer, M. A., & Alleyne, A. G. (2019). Graph-based electro-mechanical modeling of a hybrid unmanned aerial vehicle for real-time applications. In 2019 American Control Conference, ACC 2019 (pp. 4253-4259). [8814930] (Proceedings of the American Control Conference; Vol. 2019-July). Institute of Electrical and Electronics Engineers Inc..

Tannous, P. J., Docimo, D. J., Pangborn, H. C., & Alleyne, A. G. (2019). Hierarchical estimation for complex multi-domain dynamical systems. In 2019 American Control Conference, ACC 2019 (pp. 909-915). [8814330] (Proceedings of the American Control Conference; Vol. 2019-July). Institute of Electrical and Electronics Engineers Inc..

Gabrys, R., Dau, H., Colbourn, C. J., & Milenkovic, O. (2019). Set-Codes with Small Intersections and Small Discrepancies. In 2019 IEEE International Symposium on Information Theory, ISIT 2019 - Proceedings (pp. 2359-2363). [8849651] (IEEE International Symposium on Information Theory - Proceedings; Vol. 2019-July). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/ISIT.2019.8849651

Pignon, C. P., Spitz, I., Sacks, E. J., Jørgensen, U., Kørup, K., & Long, S. P. (2019). Siberian Miscanthus sacchariflorus accessions surpass the exceptional chilling tolerance of the most widely cultivated clone of Miscanthus x giganteus. GCB Bioenergy, 11(7), 883-894. https://doi.org/10.1111/gcbb.12599

Tran, V. G., Cao, M., Fatma, Z., Song, X., & Zhao, H. (2019). Development of a CRISPR/Cas9-Based Tool for Gene Deletion in Issatchenkia orientalis. mSphere, 4(3). https://doi.org/10.1128/mSphere.00345-19

Satyavolu, N. S. R., Loh, K. Y., Tan, L. H., & Lu, Y. (2019). Discovery of and Insights into DNA “Codes” for Tunable Morphologies of Metal Nanoparticles. Small, 15(26), [1900975]. https://doi.org/10.1002/smll.201900975

Kuzi, S., Cope, W., Ferguson, D., Geigle, C., & Zhai, C. X. (2019). Automatic assessment of complex assignments using topic models. In Proceedings of the 6th 2019 ACM Conference on Learning at Scale, L@S 2019 (Proceedings of the 6th 2019 ACM Conference on Learning at Scale, L@S 2019). Association for Computing Machinery, Inc. https://doi.org/10.1145/3330430.3333615

Green, A., & Zhai, C. (2019). Livedatalab: A cloud-based platform to facilitate hands-on data science education at scale. In Proceedings of the 6th 2019 ACM Conference on Learning at Scale, L@S 2019 (Proceedings of the 6th 2019 ACM Conference on Learning at Scale, L@S 2019). Association for Computing Machinery, Inc. https://doi.org/10.1145/1122445.1122456

Labhishetty, S., Bhavya, Pei, K., Boughoula, A., & Zhai, C. (2019). Wosview Demo: A tool to explore the web of slides. In Proceedings of the 6th 2019 ACM Conference on Learning at Scale, L@S 2019 (Proceedings of the 6th 2019 ACM Conference on Learning at Scale, L@S 2019). Association for Computing Machinery, Inc. https://doi.org/10.1145/3330430.3333669

Zhou, Y., Sinha, S., Schwartz, J. L., & Adami, G. R. (2019). A subtype of oral, laryngeal, esophageal, and lung, squamous cell carcinoma with high levels of TrkB-T1 neurotrophin receptor mRNA. BMC Cancer, 19(1), [607]. https://doi.org/10.1186/s12885-019-5789-8

Delucia, E. H., Chen, S., Guan, K., Peng, B., Li, Y., Gomez-Casanovas, N., ... Ort, D. R. (2019). Are we approaching a water ceiling to maize yields in the United States? Ecosphere, 10(6), [e02773]. https://doi.org/10.1002/ecs2.2019.10.issue-6

Tannous, P. J., & Alleyne, A. G. (2019). Fault Detection and Isolation for Complex Thermal Management Systems. Journal of Dynamic Systems, Measurement and Control, Transactions of the ASME, 141(6), [061008]. https://doi.org/10.1115/1.4042675

Han, S. O., Inui, M., & Jin, Y. S. (2019). Bioenergy and Biorefinery. Biotechnology Journal, 14(6), [1900160]. https://doi.org/10.1002/biot.201900160

Barber, E. A., Turasan, H., Gezer, P. G., Devina, D., Liu, G. L., & Kokini, J. (2019). Effect of plasticizing and crosslinking at room temperature on microstructure replication using soft lithography on zein films. Journal of Food Engineering, 250, 55-64. https://doi.org/10.1016/j.jfoodeng.2019.01.018

Alim, F. Z. D., Romanova, E. V., Tay, Y. L., Rahman, A. Y. B. A., Chan, K. G., Hong, K. W., ... Hindmarch, C. C. T. (2019). Seasonal adaptations of the hypothalamo-neurohypophyseal system of the dromedary camel. PloS one, 14(6), [e0216679]. https://doi.org/10.1371/journal.pone.0216679

Peng, P. C., Khoueiry, P., Girardot, C., Reddington, J. P., Garfield, D. A., Furlong, E. E. M., & Sinha, S. (2019). The role of chromatin accessibility in cis-regulatory evolution. Genome biology and evolution, 11(7), 1813-1828. [evz103]. https://doi.org/10.1093/gbe/evz103

Hamedirad, M., Weisberg, S., Chao, R., Lian, J., & Zhao, H. (2019). Highly Efficient Single-Pot Scarless Golden Gate Assembly. ACS synthetic biology, 8(5), 1047-1054. https://doi.org/10.1021/acssynbio.8b00480

Goswami, A., Mohapatra, P., & Zhai, C. (2019). Quantifying and visualizing the demand and supply gap from e-commerce search data using topic models. In The Web Conference 2019 - Companion of the World Wide Web Conference, WWW 2019 (pp. 348-353). (The Web Conference 2019 - Companion of the World Wide Web Conference, WWW 2019). Association for Computing Machinery, Inc. https://doi.org/10.1145/3308560.3316605

Sweedler, J. V. (2019). The Periodic Table of Elements at 150. Analytical chemistry, 91(9). https://doi.org/10.1021/acs.analchem.9b01714

Zhao, J., Chu, H., Zhao, Y., Lu, Y., & Li, L. (2019). A NIR Light Gated DNA Nanodevice for Spatiotemporally Controlled Imaging of MicroRNA in Cells and Animals. Journal of the American Chemical Society, 141(17), 7056-7062. https://doi.org/10.1021/jacs.9b01931

Schilling, B., Basisty, N., Christensen, D. G., Sorensen, D., Orr, J. S., Wolfe, A. J., & Rao, C. V. (2019). Global lysine acetylation in Escherichia coli results from growth conditions that favor acetate fermentation. Journal of bacteriology, 201(9), [e00768-18]. https://doi.org/10.1128/JB.00768-18

Mothet, J. P., Billard, J. M., Pollegioni, L., Coyle, J. T., & Sweedler, J. V. (2019). Investigating brain d-serine: Advocacy for good practices. Acta Physiologica, 226(1), [e13257]. https://doi.org/10.1111/apha.13257

Jia, F., Barber, E., Turasan, H., Seo, S., Dai, R., Liu, G. L., ... Kokini, J. L. (2019). Detection of Pyocyanin Using a New Biodegradable SERS Biosensor Fabricated Using Gold Coated Zein Nanostructures Further Decorated with Gold Nanoparticles. Journal of Agricultural and Food Chemistry, 67(16), 4603-4610. https://doi.org/10.1021/acs.jafc.8b07317

Neumann, E. K., Comi, T. J., Rubakhin, S., & Sweedler, J. V. (2019). Lipid Heterogeneity between Astrocytes and Neurons Revealed by Single-Cell MALDI-MS Combined with Immunocytochemical Classification. Angewandte Chemie - International Edition, 58(18), 5910-5914. https://doi.org/10.1002/anie.201812892

Satyavolu, N. S. R., Peinetti, A. S., Wang, Y., Ali, A. S., Lin, J. W., & Lu, Y. (2019). Silver-Assisted Synthesis of High-Indexed Palladium Tetrahexahedral Nanoparticles and Their Morphological Variants. Chemistry of Materials, 31(8), 2923-2929. https://doi.org/10.1021/acs.chemmater.9b00275

Mirts, E. N., Bhagi-Damodaran, A., & Lu, Y. (2019). Understanding and Modulating Metalloenzymes with Unnatural Amino Acids, Non-Native Metal Ions, and Non-Native Metallocofactors. Accounts of chemical research, 52(4), 935-944. https://doi.org/10.1021/acs.accounts.9b00011

Xu, J., Qiao, X., Zhang, J., Cheng, N., Sheng, Q., Zheng, J., ... Lu, Y. (2019). Point-of-care monitoring of intracellular glutathione and serum triglyceride levels using a versatile personal glucose meter. Analytical Methods, 11(14), 1849-1856. https://doi.org/10.1039/c8ay02709a

Sweedler, J. V. (2019). Advancing the Fields of Measurement Science with Partnerships and Awards. Analytical chemistry, 91(7). https://doi.org/10.1021/acs.analchem.9b01310

Dikanov, S. A., Berry, S. M., & Lu, Y. (2019). HYSCORE Insights into the Distribution of the Unpaired Spin Density in an Engineered Cu A Site in Azurin and Its His120Gly Variant Inorganic Chemistry, 58(7), 4437-4445. https://doi.org/10.1021/acs.inorgchem.8b03604

Kim, J., Han, K. Y., Khanna, N., Ha, T., & Belmont, A. S. (2019). Nuclear speckle fusion via long-range directional motion regulates speckle morphology after transcriptional inhibition. Journal of cell science, 132(8), [226563]. https://doi.org/10.1242/jcs.226563

Zhang, J. J., & Lu, Y. (2019). Advancing point-of-care diagnostics of metabolites through engineering semisynthetic proteins. Clinical Chemistry, 65(4), 507-509. https://doi.org/10.1373/clinchem.2018.298836

Conlan, B., Birch, R., Kelso, C., Holland, S., De Souza, A. P., Long, S. P., ... Whitney, S. M. (2019). BSD2 is a Rubisco-specific assembly chaperone, forms intermediary hetero-oligomeric complexes, and is nonlimiting to growth in tobacco. Plant Cell and Environment, 42(4), 1287-1301. https://doi.org/10.1111/pce.13473

Chen, Y., & Belmont, A. S. (2019). Genome organization around nuclear speckles. Current Opinion in Genetics and Development, 55, 91-99. https://doi.org/10.1016/j.gde.2019.06.008

Liu, J. J., Lee, J. W., Yun, E. J., Jung, S. M., Seo, J. H., & Jin, Y-S. (2019). L-Fucose production by engineered Escherichia coli. Biotechnology and bioengineering, 116(4), 904-911. https://doi.org/10.1002/bit.26907

Tannous, P. J., Peddada, S. R. T., Allison, J., Foulkes, T., Pilawa-Podgurski, R. C. N., & Alleyne, A. G. (2019). Model-based temperature estimation of power electronics systems. Control Engineering Practice, 85, 206-215. https://doi.org/10.1016/j.conengprac.2019.01.006

Zhang, J. J., Lan, T., & Lu, Y. (2019). Molecular Engineering of Functional Nucleic Acid Nanomaterials toward In Vivo Applications. Advanced Healthcare Materials, 8(6), [1801158]. https://doi.org/10.1002/adhm.201801158

Baek, Y. S., Goodrich, L. V., Brown, P. J., James, B. T., Moose, S. P., Lambert, K. N., & Riechers, D. E. (2019). Transcriptome profiling and genome-wide association studies reveal Gsts and other defense genes involved in multiple signaling pathways induced by herbicide safener in grain sorghum. Frontiers in Plant Science, 10, [192]. https://doi.org/10.3389/fpls.2019.00192

Sulkanen, A. R., Sung, J., Robb, M. J., Moore, J. S., Sottos, N. R., & Liu, G. Y. (2019). Spatially Selective and Density-Controlled Activation of Interfacial Mechanophores. Journal of the American Chemical Society, 141(9), 4080-4085. https://doi.org/10.1021/jacs.8b10257

Sweedler, J. V. (2019). Salami Publications and Duplicate Submissions: Put Them on Your List of Things to Avoid. Analytical chemistry, 91(5), 3177-3178. https://doi.org/10.1021/acs.analchem.9b00904

Kwak, S., Jo, J. H., Yun, E. J., Jin, Y-S., & Seo, J. H. (2019). Production of biofuels and chemicals from xylose using native and engineered yeast strains. Biotechnology Advances, 37(2), 271-283. https://doi.org/10.1016/j.biotechadv.2018.12.003

Jaiswal, D., De Souza, A. P., Larsen, S., LeBauer, D. S., Miguez, F. E., Sparovek, G., ... Long, S. P. (2019). Reply to: Brazilian ethanol expansion subject to limitations. Nature Climate Change, 9(3), 211-212. https://doi.org/10.1038/s41558-019-0423-y

Juneja, A., Zhang, G., Jin, Y-S., & Singh, V. (2019). Bioprocessing and technoeconomic feasibility analysis of simultaneous production of D-psicose and ethanol using engineered yeast strain KAM-2GD. Bioresource Technology, 275, 27-34. https://doi.org/10.1016/j.biortech.2018.12.025

Bibak, K., & Milenkovic, O. (2019). Explicit formulas for the weight enumerators of some classes of deletion correcting codes. IEEE Transactions on Communications, 67(3), 1809-1816. [8573841]. https://doi.org/10.1109/TCOMM.2018.2886354

Wang, S., Huang, E., Cairns, J., Peng, J., Wang, L., & Sinha, S. (2019). Identification of pathways associated with chemosensitivity through network embedding. PLoS computational biology, 15(3), [e1006864]. https://doi.org/10.1371/journal.pcbi.1006864

Epstein, E. S., Martinetti, L., Kollarigowda, R. H., Carey-De La Torre, O., Moore, J. S., Ewoldt, R. H., & Braun, P. V. (2019). Modulating Noncovalent Cross-links with Molecular Switches. Journal of the American Chemical Society, 141(8), 3597-3604. https://doi.org/10.1021/jacs.8b12762

Oh, E. J., Wei, N., Kwak, S., Kim, H., & Jin, Y-S. (2019). Overexpression of RCK1 improves acetic acid tolerance in Saccharomyces cerevisiae. Journal of Biotechnology, 292, 1-4. https://doi.org/10.1016/j.jbiotec.2018.12.013

Yun, E. J., Liu, J. J., Lee, J. W., Kwak, S., Yu, S., Kim, K. H., & Jin, Y. S. (2019). Biosynthetic Routes for Producing Various Fucosyl-Oligosaccharides. ACS synthetic biology, 8(2), 415-424. https://doi.org/10.1021/acssynbio.8b00436

Kosuge, T., Zhu, X., Lau, V. M., Aoki, D., Martinez, T. J., Moore, J. S., & Otsuka, H. (2019). Multicolor Mechanochromism of a Polymer/Silica Composite with Dual Distinct Mechanophores. Journal of the American Chemical Society, 141(5), 1898-1902. https://doi.org/10.1021/jacs.8b13310

Sweedler, J. V. (2019). The Evolving World of Scientific Publications: From Unethical Behaviors to New Mandates from Funding Agencies. Analytical chemistry, 91(3), 1673-1674. https://doi.org/10.1021/acs.analchem.9b00332

Wang, B., Guo, F., Dong, S. H., & Zhao, H. (2019). Activation of silent biosynthetic gene clusters using transcription factor decoys. Nature chemical biology, 15(2), 111-114. https://doi.org/10.1038/s41589-018-0187-0

Lopez Hernandez, H., Takekuma, S. K., Mejia, E. B., Plantz, C. L., Sottos, N. R., Moore, J. S., & White, S. R. (2019). Processing-dependent mechanical properties of solvent cast cyclic polyphthalaldehyde. Polymer, 162, 29-34. https://doi.org/10.1016/j.polymer.2018.12.016

Jiang, S., Zhai, C., & Mei, Q. (2019). Exploiting Knowledge Graph to Improve Text-based Prediction. In Y. Song, B. Liu, K. Lee, N. Abe, C. Pu, M. Qiao, N. Ahmed, D. Kossmann, J. Saltz, J. Tang, J. He, H. Liu, ... X. Hu (Eds.), Proceedings - 2018 IEEE International Conference on Big Data, Big Data 2018 (pp. 1407-1416). [8622123] (Proceedings - 2018 IEEE International Conference on Big Data, Big Data 2018). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/BigData.2018.8622123

Lloyd, E. M., Lopez Hernandez, H., Feinberg, A. M., Yourdkhani, M., Zen, E. K., Mejia, E. B., ... White, S. R. (2019). Fully Recyclable Metastable Polymers and Composites. Chemistry of Materials, 31(2), 398-406. https://doi.org/10.1021/acs.chemmater.8b03585

Morales, A., Gandhi, N., Chan, M. P. S., Lohmann, S., Sanchez, T., Brady, K. A., ... Zhai, C. (2019). Multi-Attribute Topic Feature Construction for Social Media-based Prediction. In Y. Song, B. Liu, K. Lee, N. Abe, C. Pu, M. Qiao, N. Ahmed, D. Kossmann, J. Saltz, J. Tang, J. He, H. Liu, ... X. Hu (Eds.), Proceedings - 2018 IEEE International Conference on Big Data, Big Data 2018 (pp. 1073-1078). [8622347] (Proceedings - 2018 IEEE International Conference on Big Data, Big Data 2018). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/BigData.2018.8622347

Zhang, S., Jagtap, S. S., Deewan, A., & Rao, C. V. (2019). pH selectively regulates citric acid and lipid production in Yarrowia lipolytica W29 during nitrogen-limited growth on glucose. Journal of Biotechnology, 290, 10-15. https://doi.org/10.1016/j.jbiotec.2018.10.012

South, P. F., Cavanagh, A. P., Liu, H. W., & Ort, D. R. (2019). Synthetic glycolate metabolism pathways stimulate crop growth and productivity in the field. Science, 363(6422), [eaat9077]. https://doi.org/10.1126/science.aat9077

Cui, T., Allison, J. T., & Wang, P. (2019). A comparative study of formulations and algorithms for reliability-based co-design problems. In 45th Design Automation Conference (Proceedings of the ASME Design Engineering Technical Conference; Vol. 2B-2019). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DETC2019-98307

Lourentzou, I., Manghnani, K., & Zhai, C. (2019). Adapting sequence to sequence models for text normalization in social media. 335-345. Paper presented at 13th International Conference on Web and Social Media, ICWSM 2019, Munich, Germany.

Geigle, C., Dev, H., Sundaram, H., & Zhai, C. X. (2019). A generative model for discovering action-based roles and community role compositions on community question answering platforms. 181-192. Paper presented at 13th International Conference on Web and Social Media, ICWSM 2019, Munich, Germany.

Yin, J., Wei, Y., Liu, D., Hu, Y., Lu, Q., Lui Ang, E., ... Zhang, Y. (2019). An extended bacterial reductive pyrimidine degradation pathway that enables nitrogen release from β-alanine. Journal of Biological Chemistry, 294(43), 15662-15671. https://doi.org/10.1074/jbc.RA119.010406

Tong, Y., Wei, Y., Hu, Y., Ang, E. L., Zhao, H., & Zhang, Y. (2019). A pathway for isethionate dissimilation in Bacillus krulwichiae. Applied and environmental microbiology, 85(15), [e00793-19]. https://doi.org/10.1128/AEM.00793-19

Liu, Y., Jia, Y., Wu, Q., & Moore, J. S. (2019). Architecture-Controlled Ring-Opening Polymerization for Dynamic Covalent Poly(disulfide)s. Journal of the American Chemical Society, 141(43), 17075-17080. https://doi.org/10.1021/jacs.9b08957

Gao, J., Yang, N., Lewis, F. A., Yau, P., Collins, J. J., Sweedler, J. V., & Newmark, P. A. (2019). A rotifer-derived paralytic compound prevents transmission of schistosomiasis to a mammalian host. PLoS biology, 17(10), [e3000485]. https://doi.org/10.1371/journal.pbio.3000485

Pattillo, C. C., & Moore, J. S. (2019). A tetrahedral molecular cage with a responsive vertex. Chemical Science, 10(29), 7043-7048. https://doi.org/10.1039/c9sc02047k

Zhou, Y., Wei, Y., Lin, L., Xu, T., Ang, E. L., Zhao, H., ... Zhang, Y. (2019). Biochemical and structural investigation of sulfoacetaldehyde reductase from Klebsiella oxytoca. Biochemical Journal, 476(4), 733-746. https://doi.org/10.1042/BCJ20190005

Li, M., Wei, Y., Yin, J., Lin, L., Zhou, Y., Hua, G., ... Zhang, Y. (2019). Biochemical and structural investigation of taurine:2-oxoglutarate aminotransferase from Bifidobacterium kashiwanohense. Biochemical Journal, 476(11), 1605-1619. https://doi.org/10.1042/BCJ20190206

Wang, Y., Yu, X., & Zhao, H. (2019). Biosystems design by directed evolution. AIChE Journal, [e16716]. https://doi.org/10.1002/aic.16716

Pignon, C. P., Lundgren, M. R., Osborne, C. P., & Long, S. P. (2019). Bundle sheath chloroplast volume can house sufficient Rubisco to avoid limiting C4 photosynthesis during chilling. Journal of experimental botany, 70(1), 357-365. https://doi.org/10.1093/jxb/ery345

Cui, C., Reed, J. H., Mirts, E. N., & Lu, Y. (2019). CHAPTER 2: Design and Engineering of Heme Enzymes with O 2 -dependent Catalytic Activity. In M. Ikeda-Saito, & E. Raven (Eds.), Dioxygen-dependent Heme Enzymes (13 ed., pp. 37-62). (RSC Metallobiology; Vol. 2019-January, No. 13). Royal Society of Chemistry. https://doi.org/10.1039/9781788012911-00037

Yeo, W. L., Heng, E., Tan, L. L., Lim, Y. W., Lim, Y. H., Hoon, S., ... Wong, F. T. (2019). Characterization of Cas proteins for CRISPR-Cas editing in streptomycetes. Biotechnology and bioengineering, 116(9), 2330-2338. https://doi.org/10.1002/bit.27021

Nguyen, K., DeSieno, M. A., Bae, B., Johannes, T. W., Cobb, R. E., Zhao, H., & Nair, S. K. (2019). Characterization of the flavin monooxygenase involved in biosynthesis of the antimalarial FR-900098. Organic and Biomolecular Chemistry, 17(6), 1506-1518. https://doi.org/10.1039/c8ob02840k

Badur, A. H., Ammar, E. M., Yalamanchili, G., Hehemann, J. H., & Rao, C. V. (Accepted/In press). Characterization of the GH16 and GH17 laminarinases from Vibrio breoganii 1C10. Applied Microbiology and Biotechnology. https://doi.org/10.1007/s00253-019-10243-0

Guo, T., Herber, D. R., & Allison, J. T. (2019). Circuit synthesis using generative adversarial networks (Gans). In AIAA Scitech 2019 Forum (AIAA Scitech 2019 Forum). American Institute of Aeronautics and Astronautics Inc, AIAA. https://doi.org/10.2514/6.2019-2350

Wen, F., Smith, M. R., & Zhao, H. (2019). Construction and Screening of an Antigen-Derived Peptide Library Displayed on Yeast Cell Surface for CD4+ T Cell Epitope Identification. In Methods in Molecular Biology (pp. 213-234). (Methods in Molecular Biology; Vol. 2024). Humana Press Inc.. https://doi.org/10.1007/978-1-4939-9597-4_13

Hu, W., Dang, T., Li, Z., Lei, L., Wang, G., Li, Y., ... Liu, G. L. (2019). C-reaction protein detection in human saliva by nanoplasmonic color imaging. Journal of Biomedical Nanotechnology, 16(8), 1724-1733. https://doi.org/10.1166/jbn.2019.2769

Liu, C., Yu, Y., Chen, D., Zhao, J., Yu, Y., Li, L., & Lu, Y. (2019). Cupredoxin engineered upconversion nanoparticles for ratiometric luminescence sensing of Cu2+. Nanoscale Advances, 1(7), 2580-2585. https://doi.org/10.1039/c9na00168a

Shi, S., Liang, Y., Ang, E. L., & Zhao, H. (2019). Delta integration CRISPR-Cas (Di-CRISPR) in saccharomyces cerevisiae. In Methods in Molecular Biology (pp. 73-91). (Methods in Molecular Biology; Vol. 1927). Humana Press Inc.. https://doi.org/10.1007/978-1-4939-9142-6_6

Lake, R. J., Yang, Z., Zhang, J. J., & Lu, Y. (Accepted/In press). DNAzymes as Activity-Based Sensors for Metal Ions: Recent Applications, Demonstrated Advantages, Current Challenges, and Future Directions. Accounts of chemical research. https://doi.org/10.1021/acs.accounts.9b00419

Orr, J. S., Christensen, D. G., Wolfe, A. J., & Rao, C. V. (2019). Extracellular acidic pH inhibits acetate consumption by decreasing gene transcription of the tricarboxylic acid cycle and the glyoxylate shunt. Journal of bacteriology, 201(2), [e00410-18]. https://doi.org/10.1128/JB.00410-18

Kuzi, S., & Zhai, C. (2019). Figure retrieval from collections of research articles. In L. Azzopardi, B. Stein, C. Hauff, P. Mayr, D. Hiemstra, & N. Fuhr (Eds.), Advances in Information Retrieval - 41st European Conference on IR Research, ECIR 2019, Proceedings (pp. 696-710). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 11437 LNCS). Springer-Verlag. https://doi.org/10.1007/978-3-030-15712-8_45

Patterson, A. E., & Allison, J. T. (2019). Generation and mapping of minimally-restrictive manufacturability constraints for mechanical design problems. In 24th Design for Manufacturing and the Life Cycle Conference; 13th International Conference on Micro- and Nanosystems (Proceedings of the ASME Design Engineering Technical Conference; Vol. 4). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DETC2019-97386

Roy, J., Dibaeinia, P., Fan, T. M., Sinha, S., & Das, A. (2019). Global analysis of osteosarcoma lipidomes reveal altered lipid profiles in metastatic versus nonmetastatic cells. Journal of Lipid Research, 60(2), 375-387. https://doi.org/10.1194/jlr.M088559

Kim, G., Lau, V. M., Halmes, A. J., Oelze, M. L., Moore, J. S., & Li, K. C. (2019). High-intensity focused ultrasound-induced mechanochemical transduction in synthetic elastomers. Proceedings of the National Academy of Sciences of the United States of America, 116(21), 10214-10222. https://doi.org/10.1073/pnas.1901047116

Zhou, Y., Wei, Y., Nanjaraj Urs, A. N., Lin, L., Xu, T., Hu, Y., ... Zhang, Y. (2019). Identification and characterization of a new sulfoacetaldehyde reductase from the human gut bacterium Bifidobacterium kashiwanohense. Bioscience Reports, 39(6), [Y]. https://doi.org/10.1042/BSR20190715

Wei, Y., Tan, Y. L., Ang, E. L., & Zhao, H. (Accepted/In press). Identification and Characterization of Citrus Peel Uronic Acid Oxidase. ChemBioChem. https://doi.org/10.1002/cbic.201900546

Sweedler, J. V. (Accepted/In press). Is the Power List a Representative List? Analytical chemistry. https://doi.org/10.1021/acs.analchem.9b05155

Patterson, A. E., Pereira, T. R., Allison, J., & Messimer, S. L. (2019). IZOD impact properties of full-density fused deposition modeling polymer materials with respect to raster angle and print orientation. Proceedings of the Institution of Mechanical Engineers, Part C: Journal of Mechanical Engineering Science. https://doi.org/10.1177/0954406219840385

Goswami, A., Zhai, C., & Mohapatra, P. (2019). Learning to diversify for e-commerce search with multi-Armed bandit. CEUR Workshop Proceedings, 2410.

Neumann, E. K., Ellis, J. F., Triplett, A. E., Rubakhin, S., & Sweedler, J. V. (2019). Lipid Analysis of 30 000 Individual Rodent Cerebellar Cells Using High-Resolution Mass Spectrometry. Analytical chemistry. https://doi.org/10.1021/acs.analchem.9b01689

Santu, S. K. K., Li, L., Park, D. H., Chang, Y., & Zhai, C. X. (2019). Modeling the influence of popular trending events on user search behavior. In 26th International World Wide Web Conference 2017, WWW 2017 Companion (pp. 535-544). (26th International World Wide Web Conference 2017, WWW 2017 Companion). International World Wide Web Conferences Steering Committee. https://doi.org/10.1145/3041021.3054188

Zavala, J. A., Chadha, R., Steele, D. M., Ray, C., & Moore, J. S. (2019). Molecular sciences made personal: Developing curiosity in general and organic chemistry with a multi-semester utility value intervention. ACS Symposium Series, 1341, 105-118. https://doi.org/10.1021/bk-2019-1341.ch008

Wang, Y., Xia, Y., He, T., Tian, F., Qin, T., Zhai, C. X., & Liu, T. Y. (2019). Multi-agent dual learning. Paper presented at 7th International Conference on Learning Representations, ICLR 2019, New Orleans, United States.

Herber, D. R., & Allison, J. (2019). Nested and simultaneous solution strategies for general combined plant and control design problems. Journal of Mechanical Design, Transactions Of the ASME, 141(1), [011402]. https://doi.org/10.1115/1.4040705

Xie, F., Anapindi, K. D. B., Romanova, E. V., & Sweedler, J. V. (2019). Neuropeptidomics of the mammalian brain. In Neuromethods (pp. 161-177). (Neuromethods; Vol. 146). Humana Press Inc.. https://doi.org/10.1007/978-1-4939-9662-9_14

Nakka, Y. K., Chung, S. J., Allison, J., Aldrich, J. B., & Alvarez-Salazar, O. S. (2019). Nonlinear attitude control of a spacecraft with distributed actuation of solar arrays. Journal of Guidance, Control, and Dynamics, 42(3), 458-475. https://doi.org/10.2514/1.G003478

Liu, X., Zhai, C., Han, W., & Gungor, O. (2019). Numerical facet range partition: Evaluation metric and methods. In 26th International World Wide Web Conference 2017, WWW 2017 Companion (pp. 662-671). (26th International World Wide Web Conference 2017, WWW 2017 Companion). International World Wide Web Conferences Steering Committee. https://doi.org/10.1145/3041021.3054195

Robertson, L. A., Li, Z., Cao, Y., Shkrob, I. A., Tyagi, M., Smith, K. C., ... Z, Y. (2019). Observation of Microheterogeneity in Highly Concentrated Nonaqueous Electrolyte Solutions. Journal of the American Chemical Society. https://doi.org/10.1021/jacs.9b02323

Dau, H., Milenkovic, O., & Puleo, G. J. (Accepted/In press). On the triangle clique cover and Kt clique cover problems. Discrete Mathematics, [111627]. https://doi.org/10.1016/j.disc.2019.111627

Patterson, A. E., Lee, Y. H., & Allison, J. T. (2019). Overview of the development and enforcement of process-driven manufacturability constraints in product design. In 24th Design for Manufacturing and the Life Cycle Conference; 13th International Conference on Micro- and Nanosystems (Proceedings of the ASME Design Engineering Technical Conference; Vol. 4). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DETC2019-97384

Taylor, S. H., & Long, S. P. (2019). Phenotyping photosynthesis on the limit - a critical examination of RACiR. The New phytologist, 221(2), 621-624. https://doi.org/10.1111/nph.15382

De Souza, A. P., Wang, Y., Orr, D. J., Carmo-Silva, E., & Long, S. P. (Accepted/In press). Photosynthesis across African cassava germplasm is limited by Rubisco and mesophyll conductance at steady state, but by stomatal conductance in fluctuating light. New Phytologist. https://doi.org/10.1111/nph.16142

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Kwak, S., Yun, E. J., Lane, S., Oh, E. J., Kim, K. H., & Jin, Y. S. (Accepted/In press). Redirection of the Glycolytic Flux Enhances Isoprenoid Production in Saccharomyces cerevisiae. Biotechnology Journal, [1900173]. https://doi.org/10.1002/biot.201900173

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Lane, S., Zhang, Y., Yun, E. J., Ziolkowski, L., Zhang, G., Jin, Y. S., & Avalos, J. L. (Accepted/In press). Xylose assimilation enhances the production of isobutanol in engineered Saccharomyces cerevisiae. Biotechnology and bioengineering. https://doi.org/10.1002/bit.27202

Xue, C., Zhang, S., Li, C., Yu, X., Ouyang, C., Lu, Y., & Wu, Z. S. (Accepted/In press). Y-Shaped Backbone-Rigidified Triangular DNA Scaffold-Directed Stepwise Movement of a DNAzyme Walker for Sensitive MicroRNA Imaging within Living Cells. Analytical chemistry. https://doi.org/10.1021/acs.analchem.9b03784

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Tabe-Bordbar, S., Emad, A., Zhao, S. D., & Sinha, S. (2018). A closer look at cross-validation for assessing the accuracy of gene regulatory networks and models. Scientific reports, 8(1), [6620]. https://doi.org/10.1038/s41598-018-24937-4

Albanna, A., Sim, M., Hoskisson, P. A., Gillespie, C., Rao, C. V., & Aldridge, P. D. (2018). Driving the expression of the Salmonella enterica sv Typhimurium flagellum using flhDC from Escherichia coli results in key regulatory and cellular differences. Scientific reports, 8(1), [16705]. https://doi.org/10.1038/s41598-018-35005-2

Adami, G. R., Tangney, C. C., Tang, J. L., Zhou, Y., Ghaffari, S., Naqib, A., ... Schwartz, J. L. (2018). Effects of green tea on miRNA and microbiome of oral epithelium. Scientific reports, 8(1), [5873]. https://doi.org/10.1038/s41598-018-22994-3

Tapsin, S., Sun, M., Shen, Y., Zhang, H., Lim, X. N., Susanto, T. T., ... Wan, Y. (2018). Genome-wide identification of natural RNA aptamers in prokaryotes and eukaryotes. Nature communications, 9(1), [1289]. https://doi.org/10.1038/s41467-018-03675-1

Lane, S., Xu, H., Oh, E. J., Kim, H., Lesmana, A., Jeong, D., ... Kim, S. R. (2018). Glucose repression can be alleviated by reducing glucose phosphorylation rate in Saccharomyces cerevisiae. Scientific reports, 8(1), [2613]. https://doi.org/10.1038/s41598-018-20804-4

Liu, D., Wei, Y., Liu, X., Zhou, Y., Jiang, L., Yin, J., ... Zhang, Y. (2018). Indoleacetate decarboxylase is a glycyl radical enzyme catalysing the formation of malodorant skatole. Nature communications, 9(1), [4224]. https://doi.org/10.1038/s41467-018-06627-x

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Głowacka, K., Kromdijk, J., Kucera, K., Xie, J., Cavanagh, A. P., Leonelli, L., ... Long, S. P. (2018). Photosystem II Subunit S overexpression increases the efficiency of water use in a field-grown crop. Nature communications, 9(1), [868]. https://doi.org/10.1038/s41467-018-03231-x

Ammar, E. M., Wang, X., & Rao, C. V. (2018). Regulation of metabolism in Escherichia coli during growth on mixtures of the non-glucose sugars: Arabinose, lactose, and xylose. Scientific reports, 8(1), [609]. https://doi.org/10.1038/s41598-017-18704-0

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Jayakody, L. N., Liu, J. J., Yun, E. J., Turner, T. L., Oh, E. J., & Jin, Y-S. (2018). Direct conversion of cellulose into ethanol and ethyl-β-d-glucoside via engineered Saccharomyces cerevisiae. Biotechnology and bioengineering, 115(12), 2859-2868. https://doi.org/10.1002/bit.26799

South, P. F., Cavanagh, A. P., Lopez-Calcagno, P. E., Raines, C. A., & Ort, D. R. (2018). Optimizing photorespiration for improved crop productivity. Journal of Integrative Plant Biology, 60(12), 1217-1230. https://doi.org/10.1111/jipb.12709

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Kim, T. A., Robb, M. J., Moore, J. S., White, S. R., & Sottos, N. R. (2018). Mechanical Reactivity of Two Different Spiropyran Mechanophores in Polydimethylsiloxane. Macromolecules, 51(22), 9177-9183. https://doi.org/10.1021/acs.macromol.8b01919

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Li, B., Neumann, E. K., Ge, J., Gao, W., Yang, H., Li, P., & Sweedler, J. V. (2018). Interrogation of spatial metabolome of Ginkgo biloba with high-resolution matrix-assisted laser desorption/ionization and laser desorption/ionization mass spectrometry imaging. Plant Cell and Environment, 41(11), 2693-2703. https://doi.org/10.1111/pce.13395

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Santu, S. K. K., Chang, Y., Li, L., & Zhai, C. X. (2018). Jim: Joint influence modeling for collective search behavior. In N. Paton, S. Candan, H. Wang, J. Allan, R. Agrawal, A. Labrinidis, A. Cuzzocrea, M. Zaki, D. Srivastava, A. Broder, ... A. Schuster (Eds.), CIKM 2018 - Proceedings of the 27th ACM International Conference on Information and Knowledge Management (pp. 637-646). (International Conference on Information and Knowledge Management, Proceedings). Association for Computing Machinery. https://doi.org/10.1145/3269206.3271681

Santu, S. K. K., Bindschadler, V., Zhai, C., & Gunter, C. (2018). NRF: A naive re-identification framework. In WPES 2018 - Proceedings of the 2018 Workshop on Privacy in the Electronic Society, co-located with CCS 2018 (pp. 121-132). (Proceedings of the ACM Conference on Computer and Communications Security). Association for Computing Machinery. https://doi.org/10.1145/3267323.3268948

Gossage, Z. T., Hernández-Burgos, K., Moore, J. S., & Rodriguez Lopez, J. (2018). Impact of Charge Transport Dynamics and Conditioning on Cycling Efficiency within Single Redox Active Colloids. ChemElectroChem, 5(20), 3006-3013. https://doi.org/10.1002/celc.201800736

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Yu, Z., Zhou, W., Ma, G., Li, Y., Fan, L., Li, X., & Lu, Y. (2018). Insights into the Competition between K+ and Pb2+ Binding to a G-Quadruplex and Discovery of a Novel K+-Pb2+-Quadruplex Intermediate. Journal of Physical Chemistry B, 122(40), 9382-9388. https://doi.org/10.1021/acs.jpcb.8b08161

Neumann, E. K., Comi, T. J., Spegazzini, N., Mitchell, J. W., Rubakhin, S. S., Gillette, M. U., ... Sweedler, J. V. (2018). Multimodal Chemical Analysis of the Brain by High Mass Resolution Mass Spectrometry and Infrared Spectroscopic Imaging. Analytical chemistry, 90(19), 11572-11580. https://doi.org/10.1021/acs.analchem.8b02913

Pangborn, H. C., Koeln, J. P., Williams, M. A., & Alleyne, A. G. (2018). Experimental validation of graph-based hierarchical control for thermal management. Journal of Dynamic Systems, Measurement and Control, Transactions of the ASME, 140(10), [101016]. https://doi.org/10.1115/1.4040211

Park, J. H., Yoon, J. J., Kumar, G., Jin, Y-S., & Kim, S. H. (2018). Effects of acclimation and pH on ammonia inhibition for mesophilic methanogenic microflora. Waste Management, 80, 218-223. https://doi.org/10.1016/j.wasman.2018.09.016

Kim, D. H., Kim, I. J., Yun, E. J., Kwak, S., Jin, Y-S., & Kim, K. H. (2018). Metabolic engineering of Saccharomyces cerevisiae by using the CRISPR-Cas9 system for enhanced fatty acid production. Process Biochemistry, 73, 23-28. https://doi.org/10.1016/j.procbio.2018.07.011

Guo, T., Xu, J., Sun, Y., Dong, Y., Davis, N. E., & Allison, J. (2018). Network analysis of design automation literature. Journal of Mechanical Design, Transactions Of the ASME, 140(10), [101403]. https://doi.org/10.1115/1.4040787

Dau, H., Duursma, I. M., Kiah, H. M., & Milenkovic, O. (2018). Repairing Reed-Solomon Codes With Multiple Erasures. IEEE Transactions on Information Theory, 64(10), 6567-6582. [8340062]. https://doi.org/10.1109/TIT.2018.2827942

Koeln, J. P., & Alleyne, A. G. (2018). Robust hierarchical model predictive control of graph-based power flow systems. Automatica, 96, 127-133. https://doi.org/10.1016/j.automatica.2018.06.042

Si, T., Tian, Q., Min, Y., Zhang, L., Sweedler, J. V., Van Der Donk, W. A., & Zhao, H. (2018). Rapid Screening of Lanthipeptide Analogs via In-Colony Removal of Leader Peptides in Escherichia coli. Journal of the American Chemical Society, 140(38), 11884-11888. https://doi.org/10.1021/jacs.8b05544

Gaj, T., & Perez Pinera, P. (2018). The continuously evolving CRISPR barcoding toolbox Jin-Soo Kim. Genome biology, 19(1), [143]. https://doi.org/10.1186/s13059-018-1541-y

Zhang, S., Kieffer, S. J., Zhang, C., Alleyne, A. G., & Braun, P. V. (2018). Directed Molecular Collection by E-Jet Printed Microscale Chemical Potential Wells in Hydrogel Films. Advanced Materials, 30(38), [1803140]. https://doi.org/10.1002/adma.201803140

Wang, P., Liang, J., Shi, L. Z., Wang, Y., Zhang, P., Ouyang, M., ... Wang, Y. (2018). Visualizing Spatiotemporal Dynamics of Intercellular Mechanotransmission upon Wounding. ACS Photonics, 5(9), 3565-3574. https://doi.org/10.1021/acsphotonics.8b00383

Mirts, E. N., Petrik, I. D., Hosseinzadeh, P., Nilges, M. J., & Lu, Y. (2018). A designed heme-[4Fe-4S] metalloenzyme catalyzes sulfite reduction like the native enzyme. Science, 361(6407), 1098-1101. https://doi.org/10.1126/science.aat8474

Liao, Z., Lohan, D. J., Brooks, N. C., Allison, J., & Pilawa-Podgurski, R. C. N. (2018). Multi-Objective Optimization of Series-Stacked Energy Decoupling Buffers in Single-Phase Converters. In 2018 IEEE 19th Workshop on Control and Modeling for Power Electronics, COMPEL 2018 [8459929] Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/COMPEL.2018.8459929

Mukherjee, S., Mukherjee, M., Mukherjee, A., Bhagi-Damodaran, A., Lu, Y., & Dey, A. (2018). O 2 Reduction by Biosynthetic Models of Cytochrome c Oxidase: Insights into Role of Proton Transfer Residues from Perturbed Active Sites Models of CcO. ACS Catalysis, 8(9), 8915-8924. https://doi.org/10.1021/acscatal.8b02240

Khatun, M. A., Hoque, M. A., Zhang, Y., Lu, T., Cui, L., Zhou, N. Y., & Feng, Y. (2018). Bacterial Consortium-Based Sensing System for Detecting Organophosphorus Pesticides. Analytical chemistry, 90(17), 10577-10584. https://doi.org/10.1021/acs.analchem.8b02709

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Satyavolu, N. S. R., Pishevaresfahani, N., Tan, L. H., & Lu, Y. (2018). DNA-encoded morphological evolution of bimetallic Pd@Au core-shell nanoparticles from a high-indexed core. Nano Research, 11(9), 4549-4561. https://doi.org/10.1007/s12274-018-2035-7

Jayakody, L. N., Turner, T. L., Yun, E. J., Kong, I. I., Liu, J. J., & Jin, Y-S. (2018). Expression of Gre2p improves tolerance of engineered xylose-fermenting Saccharomyces cerevisiae to glycolaldehyde under xylose metabolism. Applied Microbiology and Biotechnology, 102(18), 8121-8133. https://doi.org/10.1007/s00253-018-9216-x

Lian, J., HamediRad, M., & Zhao, H. (2018). Advancing Metabolic Engineering of Saccharomyces cerevisiae Using the CRISPR/Cas System. Biotechnology Journal, 13(9), [1700601]. https://doi.org/10.1002/biot.201700601

Khajouei, F., & Sinha, S. (2018). An information theoretic treatment of sequence-to-expression modeling. PLoS computational biology, 14(9), [e1006459]. https://doi.org/10.1371/journal.pcbi.1006459

Tabatabaei Yazdi, S. M. H., Kiah, H. M., Gabrys, R., & Milenkovic, O. (2018). Mutually uncorrelated primers for DNA-based data storage. IEEE Transactions on Information Theory, 64(9), 6283-6296. [8255669]. https://doi.org/10.1109/TIT.2018.2792488

Fine, J. D., Shpigler, H. Y., Ray, A. M., Beach, N. J., Sankey, A. L., Cash-Ahmed, A., ... Robinson, G. E. (2018). Quantifying the effects of pollen nutrition on honey bee queen egg laying with a new laboratory system. PloS one, 13(9), [e0203444]. https://doi.org/10.1371/journal.pone.0203444

Liu, H., Nelson, A. Z., Ren, Y., Yang, K., Ewoldt, R. H., & Moore, J. S. (2018). Dynamic Remodeling of Covalent Networks via Ring-Opening Metathesis Polymerization. ACS Macro Letters, 7(8), 933-937. https://doi.org/10.1021/acsmacrolett.8b00422

Lim, Y. H., Wong, F. T., Yeo, W. L., Ching, K. C., Lim, Y. W., Heng, E., ... Zhao, H. (2018). Auroramycin: A Potent Antibiotic from Streptomyces roseosporus by CRISPR-Cas9 Activation. ChemBioChem, 19(16), 1716-1719. https://doi.org/10.1002/cbic.201800266

Litman, Z. C., Wang, Y., Zhao, H., & Hartwig, J. F. (2018). Cooperative asymmetric reactions combining photocatalysis and enzymatic catalysis. Nature, 560(7718), 355-359. https://doi.org/10.1038/s41586-018-0413-7

Romanova, E. V., & Sweedler, J. V. (2018). Animal Model Systems in Neuroscience. ACS Chemical Neuroscience, 9(8), 1869-1870. https://doi.org/10.1021/acschemneuro.8b00380

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Atkins, N., Ren, S., Hatcher, N., Burgoon, P. W., Mitchell, J. W., Sweedler, J. V., & Gillette, M. L. (2018). Functional Peptidomics: Stimulus- and Time-of-Day-Specific Peptide Release in the Mammalian Circadian Clock. ACS Chemical Neuroscience, 9(8), 2001-2008. https://doi.org/10.1021/acschemneuro.8b00089

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Herber, D. R., & Allison, J. (2018). A problem class with combined architecture, plant, and control design applied to vehicle suspensions. In 44th Design Automation Conference (Vol. 2A-2018). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DETC2018-86213

Lin, C., Herber, D. R., Vedant, V., Lee, Y. H., Ghosh, A. R. M., Ewoldt, R. H., & Allison, J. (2018). Attitude control system complexity reduction via tailored viscoelastic damping co-design. In C. A. H. Walker (Ed.), Guidance, navigation, and control, 2018 (pp. 731-743). (Advances in the Astronautical Sciences; Vol. 164). Univelt Inc..

Zhang, Z. T., Jiménez-Bonilla, P., Seo, S. O., Lu, T., Jin, Y-S., Blaschek, H-P. M., & Wang, Y. (2018). Bacterial genome editing with CRISPR-Cas9: Taking clostridium beijerinckii as an example. In Methods in Molecular Biology (pp. 297-325). (Methods in Molecular Biology; Vol. 1772). Humana Press Inc.. https://doi.org/10.1007/978-1-4939-7795-6_17

Southey, B. R., Romanova, E. V., Rodriguez-Zas, S. L., & Sweedler, J. V. (2018). Bioinformatics for prohormone and neuropeptide discovery. In Methods in Molecular Biology (pp. 71-96). (Methods in Molecular Biology; Vol. 1719). Humana Press Inc.. https://doi.org/10.1007/978-1-4939-7537-2_5

Ramchandran, D., Hojilla-Evangelista, M. P., Moose, S. P., Rausch, K. D., Tumbleson, M. E., & Singh, V. (Accepted/In press). Changes in Corn Protein Content During Storage and Their Relationship with Dry Grind Ethanol Production. JAOCS, Journal of the American Oil Chemists' Society. https://doi.org/10.1002/aocs.12070

Hu, Y., Ameen, A., Hsiao, A., & Liu, G. L. (2018). Colorimetric imaging of layer-by-layer molecular deposition on nanoplasmonic lycurgus cup array. Sensors and Actuators, B: Chemical, 254, 827-833. https://doi.org/10.1016/j.snb.2017.07.039

Do, T. D., Checco, J. W., Tro, M., Shea, J. E., Bowers, M. T., & Sweedler, J. V. (2018). Conformational investigation of the structure-activity relationship of GdFFD and its analogues on an achatin-like neuropeptide receptor of: Aplysia californica involved in the feeding circuit. Physical Chemistry Chemical Physics, 20(34), 22047-22057. https://doi.org/10.1039/c8cp03661f

Weir, N. A., & Alleyne, A. G. (2018). Controller design for two-input single-output systems exploiting plant/controller alignment. In Advances in Control Design Methods; Advances in Nonlinear Control; Advances in Robotics; Assistive and Rehabilitation Robotics; Automotive Dynamics and Emerging Powertrain Technologies; Automotive Systems; Bio Engineering Applications; Bio-Mechatronics and Physical Human Robot Interaction; Biomedical and Neural Systems; Biomedical and Neural Systems Modeling, Diagnostics, and Healthcare (ASME 2018 Dynamic Systems and Control Conference, DSCC 2018; Vol. 1). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DSCC2018-9182

Tasan, I., Sustackova, G., Zhang, L., Kim, J., Sivaguru, M., HamediRad, M., ... Zhao, H. (2018). CRISPR/Cas9-mediated knock-in of an optimized TetO repeat for live cell imaging of endogenous loci. Nucleic acids research, 46(17), [e100]. https://doi.org/10.1093/nar/gky501

Turner, T. L., Kim, H., Kong, I. I., Liu, J. J., Zhang, G. C., & Jin, Y-S. (2018). Engineering and evolution of saccharomyces cerevisiae to produce biofuels and chemicals. In Advances in Biochemical Engineering/Biotechnology (pp. 175-215). (Advances in Biochemical Engineering/Biotechnology; Vol. 162). Springer Science and Business Media Deutschland GmbH. https://doi.org/10.1007/10_2016_22

Tannous, P. J., & Alleyne, A. G. (2018). Fault detection and isolation for complex thermal management systems. In Control and Optimization of Connected and Automated Ground Vehicles; Dynamic Systems and Control Education; Dynamics and Control of Renewable Energy Systems; Energy Harvesting; Energy Systems; Estimation and Identification; Intelligent Transportation and Vehicles; Manufacturing; Mechatronics; Modeling and Control of IC Engines and Aftertreatment Systems; Modeling and Control of IC Engines and Powertrain Systems; Modeling and Management of Power Systems (ASME 2018 Dynamic Systems and Control Conference, DSCC 2018; Vol. 2). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DSCC2018-9132

Goli, E., Robertson, I. D., Agarwal, H., Pruitt, E. L., Grolman, J. M., Geubelle, P. H., & Moore, J. S. (Accepted/In press). Frontal polymerization accelerated by continuous conductive elements. Journal of Applied Polymer Science, [47418]. https://doi.org/10.1002/app.47418

Docimo, D. J., Pangborn, H. C., & Alleyne, A. G. (2018). Hierarchical control for electro-thermal power management of an electric vehicle powertrain. In Control and Optimization of Connected and Automated Ground Vehicles; Dynamic Systems and Control Education; Dynamics and Control of Renewable Energy Systems; Energy Harvesting; Energy Systems; Estimation and Identification; Intelligent Transportation and Vehicles; Manufacturing; Mechatronics; Modeling and Control of IC Engines and Aftertreatment Systems; Modeling and Control of IC Engines and Powertrain Systems; Modeling and Management of Power Systems (ASME 2018 Dynamic Systems and Control Conference, DSCC 2018; Vol. 2). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DSCC2018-9215

Rasmussen, B. P., Price, C., Koeln, J., Keating, B., & Alleyne, A. G. (2018). HVAC system modeling and control: Vapor compression system modeling and control. In Advances in Industrial Control (9783319684611 ed., pp. 73-103). (Advances in Industrial Control; No. 9783319684611). Springer International Publishing. https://doi.org/10.1007/978-3-319-68462-8_4

Armstrong, A., Wagoner Johnson, A. J., & Alleyne, A. G. (2018). Improved cross-coupled iterative learning control for contouring NURBS curves. In Control and Optimization of Connected and Automated Ground Vehicles; Dynamic Systems and Control Education; Dynamics and Control of Renewable Energy Systems; Energy Harvesting; Energy Systems; Estimation and Identification; Intelligent Transportation and Vehicles; Manufacturing; Mechatronics; Modeling and Control of IC Engines and Aftertreatment Systems; Modeling and Control of IC Engines and Powertrain Systems; Modeling and Management of Power Systems (Vol. 2). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DSCC2018-9145

Larson, T. H., Balikian, R. J., Ruiz-Vera, U., & Ort, D. R. (2018). In-situ cassava root size measurement using ground penetrating radar (GPR). Proceedings of the Symposium on the Application of Geophyics to Engineering and Environmental Problems, SAGEEP, 2018-March.

Walukiewicz, H. E., Ordal, G. W., & Rao, C. V. (2018). In vitro assay for measuring receptor-kinase activity in the bacillus subtilis chemotaxis pathway. In Methods in Molecular Biology (pp. 95-105). (Methods in Molecular Biology; Vol. 1729). Humana Press Inc.. https://doi.org/10.1007/978-1-4939-7577-8_10

Goswami, A., Zhai, C., & Mohapatra, P. (2018). Learning to rank and discover for E-commerce search. In P. Perner (Ed.), Machine Learning and Data Mining in Pattern Recognition - 14th International Conference, MLDM 2018, Proceedings (pp. 331-346). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 10935 LNAI). Springer-Verlag. https://doi.org/10.1007/978-3-319-96133-0_25

Patterson, A. E., & Allison, J. T. (2018). Manufacturability constraint formulation for design under hybrid additive-subtractive manufacturing. In 23rd Design for Manufacturing and the Life Cycle Conference; 12th International Conference on Micro- and Nanosystems (Proceedings of the ASME Design Engineering Technical Conference; Vol. 4). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DETC2018-85637

Liu, J., Liang, Y. J., Ren, P. L., & Gaj, T. (2018). Manufacturing and delivering genome-editing proteins. In Methods in Molecular Biology (pp. 253-273). (Methods in Molecular Biology; Vol. 1867). Humana Press Inc.. https://doi.org/10.1007/978-1-4939-8799-3_19

Dau, H., & Milenkovic, O. (2018). Maxminsum steiner systems for access balancing in distributed storage. SIAM Journal on Discrete Mathematics, 32(3), 1644-1671. https://doi.org/10.1137/17M1143964

Schultz, C., Lian, J., & Zhao, H. (2018). Metabolic Engineering of Saccharomyces cerevisiae Using a Trifunctional CRISPR/Cas System for Simultaneous Gene Activation, Interference, and Deletion. In N. Scrutton (Ed.), Methods in Enzymology (pp. 265-276). (Methods in Enzymology; Vol. 608). Academic Press Inc.. https://doi.org/10.1016/bs.mie.2018.04.010

Peng, J., Milenkovic, O., & Ochoa, I. (2018). METHCOMP: A special purpose compression platform for DNA methylation data. Bioinformatics, 34(15), 2654-2656. https://doi.org/10.1093/bioinformatics/bty143

Jagtap, S. S., & Rao, C. V. (Accepted/In press). Microbial conversion of xylose into useful bioproducts. Applied Microbiology and Biotechnology. https://doi.org/10.1007/s00253-018-9294-9

ALSaad, F., Boughoula, A., Geigle, C., Sundaram, H., & Zhai, C. (2018). Mining MOOC lecture transcripts to construct concept dependency graphs. Paper presented at 11th International Conference on Educational Data Mining, EDM 2018, Buffalo, United States.

Angatkina, O., & Alleyne, A. G. (2018). Model predictive control of a pumped two-phase cooling system with microchannel heat exchangers. In Control and Optimization of Connected and Automated Ground Vehicles; Dynamic Systems and Control Education; Dynamics and Control of Renewable Energy Systems; Energy Harvesting; Energy Systems; Estimation and Identification; Intelligent Transportation and Vehicles; Manufacturing; Mechatronics; Modeling and Control of IC Engines and Aftertreatment Systems; Modeling and Control of IC Engines and Powertrain Systems; Modeling and Management of Power Systems (ASME 2018 Dynamic Systems and Control Conference, DSCC 2018; Vol. 2). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DSCC2018-9143

Koeln, J., Keating, B., Alleyne, A. G., Price, C., & Rasmussen, B. P. (2018). Multi-zone temperature modeling and control. In Advances in Industrial Control (9783319684611 ed., pp. 139-166). (Advances in Industrial Control; No. 9783319684611). Springer International Publishing. https://doi.org/10.1007/978-3-319-68462-8_6

Tai, H. C., Checco, J. W., & Sweedler, J. V. (2018). Non-targeted identification of d-amino acid-containing peptides through enzymatic screening, chiral amino acid analysis, and LC-MS. In Methods in Molecular Biology (pp. 107-118). (Methods in Molecular Biology; Vol. 1719). Humana Press Inc.. https://doi.org/10.1007/978-1-4939-7537-2_7

Peddada, S. R. T., Herber, D. R., Pangborn, H. C., Alleyne, A. G., & Allison, J. T. (2018). Optimal flow control and single split architecture exploration for fluid-based thermal management. In 44th Design Automation Conference (Proceedings of the ASME Design Engineering Technical Conference; Vol. 2A-2018). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DETC2018-86148

Garcia-Ruiz, E., HamediRad, M., & Zhao, H. (2018). Pathway design, engineering, and optimization. In Advances in Biochemical Engineering/Biotechnology (Advances in Biochemical Engineering/Biotechnology; Vol. 162). Springer Science and Business Media Deutschland GmbH. https://doi.org/10.1007/10_2016_12

Kong, I. I., Turner, T. L., Kim, H., Kim, S. R., & Jin, Y. S. (2018). Phenotypic evaluation and characterization of 21 industrial Saccharomyces cerevisiae yeast strains. FEMS yeast research, 18(1). https://doi.org/10.1093/femsyr/foy001

Jiang, J., Wang, X., Li, S., Ding, F., Li, N., Meng, S., ... Liu, G. L. (2018). Plasmonic nano-arrays for ultrasensitive bio-sensing. Nanophotonics, 7(9), 1517-1531. https://doi.org/10.1515/nanoph-2018-0023

Jagtap, S. S., & Rao, C. V. (2018). Production of d-arabitol from d-xylose by the oleaginous yeast Rhodosporidium toruloides IFO0880. Applied Microbiology and Biotechnology, 102(1), 143-151. https://doi.org/10.1007/s00253-017-8581-1

Guo, T., Herber, D. R., & Allison, J. (2018). Reducing evaluation cost for circuit synthesis using active learning. In 44th Design Automation Conference (Proceedings of the ASME Design Engineering Technical Conference; Vol. 2A-2018). American Society of Mechanical Engineers (ASME). https://doi.org/10.1115/DETC201885654

Lee, Y. H., Schuh, J. K., Ewoldt, R. H., & Allison, J. T. (2018). Simultaneous design of non-newtonian lubricant and surface texture using surrogate-based optimization. In AIAA/ASCE/AHS/ASC Structures, Structural Dynamics, and Materials (210049 ed.). (AIAA/ASCE/AHS/ASC Structures, Structural Dynamics, and Materials Conference, 2018; No. 210049). American Institute of Aeronautics and Astronautics Inc, AIAA. https://doi.org/10.2514/6.2018-1906

Morales-Soto, N., Dunham, S. J. B., Baig, N. F., Ellis, J. F., Madukoma, C. S., Bohn, P. W., ... Shrout, J. D. (2018). Spatially dependent alkyl quinolone signaling responses to antibiotics in Pseudomonas aeruginosa swarms. Journal of Biological Chemistry, 293(24), 9544-9552. https://doi.org/10.1074/jbc.RA118.002605

Li, P., & Milenkovic, O. (2018). Submodular hypergraphs: P-Laplacians, cheeger inequalities and spectral clustering. In J. Dy, & A. Krause (Eds.), 35th International Conference on Machine Learning, ICML 2018 (pp. 4690-4719). (35th International Conference on Machine Learning, ICML 2018; Vol. 7). International Machine Learning Society (IMLS).

Lee, D. G., Jeon, J. M., Yang, Y. H., Jin, Y-S., & Yoon, J. J. (Accepted/In press). The pH-stat Butyric Acid Feeding Strategy Coupled with Gas-Stripping for n-Butanol Production by Clostridium beijerinckii. Waste and Biomass Valorization. https://doi.org/10.1007/s12649-018-0461-0

Goswami, A., Zhai, C., & Mohapatra, P. (2018). Towards optimization of e-commerce search and discovery. CEUR Workshop Proceedings, 2319.

Zhang, J., Xing, H., & Lu, Y. (2018). Translating molecular detections into a simple temperature test using a target-responsive smart thermometer. Chemical Science, 9(16), 3906-3910. https://doi.org/10.1039/c7sc05325h

Lane, S., Dong, J., & Jin, Y-S. (Accepted/In press). Value-added biotransformation of cellulosic sugars by engineered Saccharomyces cerevisiae. Bioresource Technology. https://doi.org/10.1016/j.biortech.2018.04.013

Huang, E. W., Wang, S., & Zhai, C. X. (2018). VisAGE: Integrating external knowledge into electronic medical record visualization. Pacific Symposium on Biocomputing, 0(212669), 578-589. https://doi.org/10.1142/9789813235533_0053

LeBauer, D. S., Kooper, R., Mulrooney, P., Rohde, S., Wang, D., Long, S. P., & Dietze, M. C. (2018). BETYdb: a yield, trait, and ecosystem service database applied to second-generation bioenergy feedstock production. GCB Bioenergy, 10(1), 61-71. https://doi.org/10.1111/gcbb.12420