Targeting virulence: a new paradigm for antimicrobial therapy
AE Clatworthy, E Pierson, DT Hung - Nature chemical biology, 2007 - nature.com
Clinically significant antibiotic resistance has evolved against virtually every antibiotic
deployed. Yet the development of new classes of antibiotics has lagged far behind our growing …
deployed. Yet the development of new classes of antibiotics has lagged far behind our growing …
[HTML][HTML] Metabolism and function of phenazines in bacteria: impacts on the behavior of bacteria in the environment and biotechnological processes
LS Pierson, EA Pierson - Applied microbiology and biotechnology, 2010 - Springer
Phenazines constitute a large group of nitrogen-containing heterocyclic compounds
produced by a diverse range of bacteria. Both natural and synthetic phenazine derivatives are …
produced by a diverse range of bacteria. Both natural and synthetic phenazine derivatives are …
Ethical machine learning in healthcare
The use of machine learning (ML) in healthcare raises numerous ethical concerns, especially
as models can amplify existing health inequities. Here, we outline ethical considerations …
as models can amplify existing health inequities. Here, we outline ethical considerations …
[HTML][HTML] Mobility network models of COVID-19 explain inequities and inform reopening
The coronavirus disease 2019 (COVID-19) pandemic markedly changed human mobility
patterns, necessitating epidemiological models that can capture the effects of these changes in …
patterns, necessitating epidemiological models that can capture the effects of these changes in …
Wilds: A benchmark of in-the-wild distribution shifts
Distribution shifts—where the training distribution differs from the test distribution—can
substantially degrade the accuracy of machine learning (ML) systems deployed in the wild. …
substantially degrade the accuracy of machine learning (ML) systems deployed in the wild. …
Algorithmic decision making and the cost of fairness
Algorithms are now regularly used to decide whether defendants awaiting trial are too
dangerous to be released back into the community. In some cases, black defendants are …
dangerous to be released back into the community. In some cases, black defendants are …
Concept bottleneck models
We seek to learn models that we can interact with using high-level concepts: if the model
did not think there was a bone spur in the x-ray, would it still predict severe arthritis? State-of-the…
did not think there was a bone spur in the x-ray, would it still predict severe arthritis? State-of-the…
[HTML][HTML] Complete genome sequence of the plant commensal Pseudomonas fluorescens Pf-5
…, K Tran, H Khouri, EA Pierson, LS Pierson III… - Nature …, 2005 - nature.com
Pseudomonas fluorescens Pf-5 is a plant commensal bacterium that inhabits the rhizosphere
and produces secondary metabolites that suppress soilborne plant pathogens. The …
and produces secondary metabolites that suppress soilborne plant pathogens. The …
[HTML][HTML] Comparative Genomics of Plant-Associated Pseudomonas spp.: Insights into Diversity and Inheritance of Traits Involved in Multitrophic Interactions
We provide here a comparative genome analysis of ten strains within the Pseudomonas
fluorescens group including seven new genomic sequences. These strains exhibit a diverse …
fluorescens group including seven new genomic sequences. These strains exhibit a diverse …
[HTML][HTML] ZIFA: Dimensionality reduction for zero-inflated single-cell gene expression analysis
… Computing the value of the parameters at each iteration requires two steps: the expectation
step (E-step) and the maximization step (M-step). In the E-step, we derive an expression for …
step (E-step) and the maximization step (M-step). In the E-step, we derive an expression for …