Detecting differential growth of microbial populations with Gaussian process regression

Peter D. Tonner, Cynthia L. Darnell, Barbara E. Engelhardt, +1

Genome Research

Microbial DiversityMicrobial GrowthEngineeringQuantitative MicrobiologyMedicine +12

Synergistic Impacts of Organic Acids and pH on Growth of Pseudomonas aeruginosa: A Comparison of Parametric and Bayesian Non-parametric Methods to Model Growth

Francesca M. L. Bushell, Peter D. Tonner, Sara Jabbari, +2

Frontiers in Microbiology

The genotype‐phenotype landscape of an allosteric protein

Drew S. Tack, Peter D. Tonner, Abe Pressman, +6

Molecular Systems Biology

Interpretable modeling of genotype–phenotype landscapes with state-of-the-art predictive power

Peter D. Tonner, Abe Pressman, David Ross

Proceedings of the National Academy of Sciences

Detecting transcription of ribosomal protein pseudogenes in diverse human tissues from RNA-seq data

Peter D. Tonner, Vinodh Srinivasasainagendra, Shaojie Zhang, +1

BMC Genomics

A Regulatory Hierarchy Controls the Dynamic Transcriptional Response to Extreme Oxidative Stress in Archaea

Peter D. Tonner, Adrianne M. C. Pittman, Jordan G. Gulli, +2

PLoS Genetics

EngineeringMolecular BiologyGene Regulatory NetworkArchaeaRedox Biology +18

Systematic Discovery of Archaeal Transcription Factor Functions in Regulatory Networks through Quantitative Phenotyping Analysis

Cynthia L. Darnell, Peter D. Tonner, Jordan G. Gulli, +2

mSystems

Predicted coronavirus Nsp5 protease cleavage sites in the human proteome

Benjamin Scott, Vincent Lacasse, Ditte G. Blom, +2

BMC Genomic Data

A transcription network of interlocking positive feedback loops maintains intracellular iron balance in archaea

Mar Martínez-Pastor, W. Andrew Lancaster, Peter D. Tonner, +2

Nucleic Acids Research

EngineeringIron AvailabilityIron MetabolismMicrobial PhysiologyArchaea +14

A Bayesian non-parametric mixed-effects model of microbial growth curves

Peter D. Tonner, Cynthia L. Darnell, Francesca M. L. Bushell, +3

PLoS Computational Biology

BiologyBayesian StatisticsEngineeringStatistical ModelingPopulation Dynamic +13