Detecting differential growth of microbial populations with Gaussian process regression PD Tonner, CL Darnell, BE Engelhardt, AK Schmid Genome research 27 (2), 320-333, 2017 | 64 | 2017 |
Synergistic impacts of organic acids and pH on growth of Pseudomonas aeruginosa: A comparison of parametric and Bayesian non-parametric methods to model growth FML Bushell, PD Tonner, S Jabbari, AK Schmid, PA Lund Frontiers in Microbiology 9, 418502, 2019 | 54 | 2019 |
The genotype‐phenotype landscape of an allosteric protein DS Tack, PD Tonner, A Pressman, ND Olson, SF Levy, EF Romantseva, ... Molecular systems biology 17 (3), e10179, 2021 | 47 | 2021 |
Detecting transcription of ribosomal protein pseudogenes in diverse human tissues from RNA-seq data P Tonner, V Srinivasasainagendra, S Zhang, D Zhi BMC genomics 13, 1-10, 2012 | 42 | 2012 |
Transcriptional regulation in archaea: from individual genes to global regulatory networks M Martinez-Pastor, PD Tonner, CL Darnell, AK Schmid Annual review of genetics 51, 143-170, 2017 | 40 | 2017 |
A regulatory hierarchy controls the dynamic transcriptional response to extreme oxidative stress in archaea PD Tonner, AMC Pittman, JG Gulli, K Sharma, AK Schmid PLoS Genetics 11 (1), e1004912, 2015 | 38 | 2015 |
Geppetto: An environment for the efficient control and transmission of digital puppetry DP Mapes, P Tonner, CE Hughes Virtual and Mixed Reality-Systems and Applications: International Conference …, 2011 | 28 | 2011 |
Systematic discovery of archaeal transcription factor functions in regulatory networks through quantitative phenotyping analysis CL Darnell, PD Tonner, JG Gulli, SC Schmidler, AK Schmid MSystems 2 (5), 10.1128/msystems. 00032-17, 2017 | 26 | 2017 |
Predicted coronavirus Nsp5 protease cleavage sites in the human proteome BM Scott, V Lacasse, DG Blom, PD Tonner, NS Blom BMC Genomic Data 23 (1), 25, 2022 | 20 | 2022 |
A transcription network of interlocking positive feedback loops maintains intracellular iron balance in archaea M Martinez-Pastor, WA Lancaster, PD Tonner, MWW Adams, AK Schmid Nucleic Acids Research 45 (17), 9990-10001, 2017 | 19 | 2017 |
Interpretable modeling of genotype–phenotype landscapes with state-of-the-art predictive power PD Tonner, A Pressman, D Ross Proceedings of the National Academy of Sciences 119 (26), e2114021119, 2022 | 16 | 2022 |
A Bayesian non-parametric mixed-effects model of microbial growth curves PD Tonner, CL Darnell, FML Bushell, PA Lund, AK Schmid, SC Schmidler PLOS Computational Biology 16 (10), e1008366, 2020 | 12 | 2020 |
Application of bayesian optimization and regression analysis to ferromagnetic materials development AR Will-Cole, AG Kusne, P Tonner, C Dong, X Liang, H Chen, NX Sun IEEE Transactions on Magnetics 58 (1), 1-8, 2021 | 7 | 2021 |
Interpretable modeling of genotype-phenotype landscapes with state-of-the-art predictive power PD Tonner, A Pressman, D Ross bioRxiv, 2021.06. 11.448129, 2021 | 6 | 2021 |
Systematic discovery of archaeal transcription factor functions in regulatory networks through quantitative phenotyping analysis. mSystems 2: e00032-17 CL Darnell, PD Tonner, JG Gulli, SC Schmidler, AK Schmid Web of Science, 2017 | 5 | 2017 |
Method for reproducible automated bacterial cell culture and measurement D Ross, PD Tonner, OB Vasilyeva Synthetic Biology 7 (1), ysac013, 2022 | 4 | 2022 |
Predicted Coronavirus Nsp5 Protease Cleavage Sites in the Human Proteome: A Resource for SARS-CoV-2 Research BM Scott, V Lacasse, DG Blom, PD Tonner, NS Blom bioRxiv, 2021.06. 08.447224, 2021 | 3 | 2021 |
Precision engineering of biological function with large-scale measurements and machine learning DS Tack, PD Tonner, A Pressman, ND Olson, SF Levy, EF Romantseva, ... PloS one 18 (3), e0283548, 2023 | 1 | 2023 |
StratoMod: Predicting sequencing and variant calling errors with interpretable machine learning N Dwarshuis, P Tonner, ND Olson, FJ Sedlazeck, J Wagner, JM Zook bioRxiv, 2023.01. 20.524401, 2023 | 1 | 2023 |
Measurements drive progress in directed evolution for precise engineering of biological systems DS Tack, EF Romantseva, PD Tonner, A Pressman, J Rammohan, ... Current opinion in systems biology 23, 32-37, 2020 | 1 | 2020 |