Lead Laboratory
Publication Date
Genome-scale model development and genomic sequencing of the oleaginous clade Lipomyces
Czajka, J., Han, Y., Kim, J., et al. (2024). Frontiers in Bioengineering and Biotechnology.
Machine learning analysis of RB-TnSeq fitness data predicts functional gene modules in Pseudomonas putida KT2440
Borchert, A., Bleem, A., et al. (2024). mSystems.
Special Issue on Artificial Intelligence for Synthetic Biology
Martin, H.G., et al. (2024). ACS Synthetic Biology.
Ten simple rules for managing laboratory information
Berezin, C., Aguilera, L., Billerbeck, S., et al. (2023). PLOS Computational Biology.
Comparison of wild-type KT2440 and genome-reduced EM42 Pseudomonas putida strains for muconate production from aromatic compounds and glucose
Amendola, C., Cordell, W., Kneucker, C., et al. (2023). Metabolic Engineering.
Elastomeric vitrimers from designer polyhydroxyalkanoates with recyclability and biodegradability
Cywar, R., Ling C., Clarke, R., et al. (2023). Science Advances.
Automated Platform for the Plasmid Construction Process
Nava, A., Fear, A., Lee, N., et al. (2023). ACS Synthetic Biology.
BayFlux: A Bayesian method to quantify metabolic Fluxes and their uncertainty at the genome scale
Backman, T., Schenk, C., Radivojevic, T., et al (2023). PLOS Computational Biology.
A Procedural Framework for Benchmarking Biofoundry Capabilities
Hillson, N. (2023). ACS Synthetic Biology.
Advances in genome-scale metabolic models of industrially important fungi
Han, Y., Rangel, A., Pomraning, K., et al. (2023). Current Opinion in Biotechnology.
Identification of a specific exporter that enables high production of aconitic acid in Aspergillus pseudoterreus
Deng, S., Kim, J., Pomraning, K., Gao, Y., et al (2023). Metabolic Engineering.
Engineering transcriptional regulation of pentose metabolism in Rhodosporidium toruloides for improved conversion of xylose to bioproducts
Coradetti, S., Adamczyk, P., Liu, D., Gao, Y.,Otoupal, P., Geiselman, G., Webb-Robertson, B., Burnet, M., Kim, Y., Burnum-Johnson, K., Magnuson, J., Gladden, J. (2023). Microbial Cell Factories.
Non-canonical D-xylose and L-arabinose metabolism via D-arabitol in the oleaginous yeast Rhodosporidium toruloides
Adamczyk, P., Coradetti, S., Gladden, J. (2023). Microbial Cell Factories.
Introduction to the Special Issue on BioFoundries and Cloud Laboratories
Densmore, D., Hillson, N., Klavins, E., Meyers, C., Peccoud, J., Stracquadanio, G. (2023). ACM Journal on Emerging Technologies in Computing Systems.
Targeted mutagenesis and high-throughput screening of diversified gene and promoter libraries for isolating gain-of-function mutations
Huttanus, H., Triola, E.K., Velasquez-Guzman, J., Shin, S., Granja-Travez, R., Singh, A., Dale, T., Jha, R. (2023). Frontiers in Bioengineering and Biotechnology.
Rapid and robust squashed spore/colony PCR of industrially important fungi
Yuan, G., Czajka, J., Dai, Z., Hu, D., Pomraning, K., Hofstad, B., Kim, J., Robles, A., Deng, S., Magnuson, J. (2023). Fungal Biology and Biotechnology.
Alkaline-SDS cell lysis of microbes with acetone protein precipitation for proteomic sample preparation in 96-well plate format
Chen, Y., Gin. J., Wang, Y., de Raad, M., Tan, S., Hillson, N., Northen, T., Adams, P., Petzold, C. (2023). PLOS ONE.
PeakDecoder enables machine learning-based metabolite annotation and accurate profiling in multidimensional mass spectrometry measurements
Bilbao, A., Munoz, N., Kim, J., et al (2023). Nature Communications.
Metabolic engineering to improve production of 3-hydroxypropionic acid from corn-stover hydrolysate in Aspergillus species
Dai, Z., Pomraning, K., Deng, S., Kim, J., et al (2023). Biotechnology for Biofuels and Bioproducts.
Biological research and self-driving labs in deep space supported by artificial intelligence
Sanders, L.M., Scott, R. T., Yang, J. H., Qutub, A., Martin, H. G., et al (2023). Nature Machine Intelligence.