D. Hogan

发表

ADAGE-Based Integration of Publicly Available Pseudomonas aeruginosa Gene Expression Data with Denoising Autoencoders Illuminates Microbe-Host Interactions

C. Greene, J. Tan, J. Hammond, 2016, mSystems.

Identification of genes required for Pseudomonas aeruginosa carnitine catabolism.

D. Hogan, M. Wargo, 2009, Microbiology.

Identification of Two Gene Clusters and a Transcriptional Regulator Required for Pseudomonas aeruginosa Glycine Betaine Catabolism

D. Hogan, M. Wargo, B. Szwergold, 2007, Journal of bacteriology.

Unsupervised extraction of functional gene expression signatures in the bacterial pathogen Pseudomonas aeruginosa with eADAGE

Kathleen M. Chen, Kimberley A. Lewis, M. Laub, 2016, bioRxiv.

Unsupervised extraction of stable expression signatures from public compendia with eADAGE

Casey S. Greene, Jie Tan, Michael T. Laub, 2016 .

An rRNA fragment in extracellular vesicles secreted by human airway epithelial cells increases the fluoroquinolone sensitivity of P. aeruginosa

S. Gerber, D. Hogan, Y. Goo, 2022, bioRxiv.

ADAGE signature analysis: differential expression analysis with data-defined gene sets

C. Greene, M. Huyck, J. Tan, 2017, bioRxiv.

Interdomain Cross Talk

R. Kolter, D. Hogan, C. Cugini, 2008 .

Cloning and Characterization of a Sulfonate/α-Ketoglutarate Dioxygenase from Saccharomyces cerevisiae

R. Hausinger, D. Hogan, T. A. Auchtung, 1999, Journal of bacteriology.

Evolution of drug resistance in an antifungal-naive chronic Candida lusitaniae infection

J. Stajich, D. Hogan, A. Ashare, 2018, Proceedings of the National Academy of Sciences.

Pearls collections: What we can learn about infectious disease and cancer

J. Heitman, D. Hogan, R. Condit, 2018, PLoS pathogens.

Medically important bacterial–fungal interactions

Deborah A. Hogan, Eleftherios Mylonakis, D. Hogan, 2010, Nature Reviews Microbiology.

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Jari Björne, Tapio Salakoski, Giorgio Valentini, 2019, Genome Biology.

Unique microbial communities persist in individual cystic fibrosis patients throughout a clinical exacerbation

Deborah A Hogan, M. Sogin, H. Morrison, 2013, Microbiome.

Analysis of the Candida albicans

J. Stajich, D. Hogan, A. Kettenbach, 2015 .

Analysis of the Candida albicans Phosphoproteome

J. Stajich, D. Hogan, A. Kettenbach, 2015, Eukaryotic Cell.

Ethanol stimulates trehalose production through a SpoT-DksA-AlgU dependent pathway in Pseudomonas aeruginosa

D. Hogan, Georgia Doing, D. Nguyen, 2019, bioRxiv.

Ethanol Stimulates Trehalose Production through a SpoT-DksA-AlgU-Dependent Pathway in Pseudomonas aeruginosa

D. Hogan, Georgia Doing, D. Nguyen, 2019, bioRxiv.

Control of Candida albicans Metabolism and Biofilm Formation by Pseudomonas aeruginosa Phenazines

Nicholas J. Jacobs, D. Hogan, L. Dietrich, 2013, mBio.

Conditional antagonism in co-cultures of Pseudomonas aeruginosa and Candida albicans: An intersection of ethanol and phosphate signaling distilled from dual-seq transcriptomics

D. Hogan, Georgia Doing, K. Koeppen, 2020, PLoS genetics.

Conditional antagonism in co-cultures of Pseudomonas aeruginosa and Candida albicans: An intersection of ethanol and phosphate signaling distilled from dual-seq transcriptomics

D. Hogan, Georgia Doing, K. Koeppen, 2020, bioRxiv.

Linking quorum sensing regulation and biofilm formation by Candida albicans.

D. Hogan, A. Deveau, 2011, Methods in molecular biology.

Antimicrobial-Induced DNA Damage and Genomic Instability in Microbial Pathogens

D. Hogan, 2015 .

GbdR Regulates Pseudomonas aeruginosa plcH and pchP Transcription in Response to Choline Catabolites

Deborah A. Hogan, D. Hogan, M. Wargo, 2008, Infection and Immunity.

Global regulator Anr represses PlcH phospholipase activity in Pseudomonas aeruginosa when oxygen is limiting.

J. Hammond, D. Hogan, S. D. Willger, 2014, Microbiology.

The Yin and Yang of Phenazine Physiology

D. Newman, D. Hogan, Nora Grahl, 2013 .

Antifungal mechanisms by which a novel Pseudomonas aeruginosa phenazine toxin kills Candida albicans in biofilms

Nicholas J. Jacobs, D. Hogan, S. Rajamani, 2010, Molecular microbiology.

Candida albicans Ethanol Stimulates Pseudomonas aeruginosa WspR-Controlled Biofilm Formation as Part of a Cyclic Relationship Involving Phenazines

Annie I. Chen, G. O’Toole, D. Hogan, 2014, PLoS pathogens.

Mixed bacterial-fungal infections in the CF respiratory tract.

D. Hogan, L. Leclair, 2010, Medical mycology.

The prevalence of simultaneous colonization by bacteria and fungi in the CF lung

D. Hogan, L. Leclair, 2010 .

Mrr1 regulation of methylglyoxal catabolism and methylglyoxal-induced fluconazole resistance in Candida lusitaniae

D. Hogan, Elora G. Demers, Amy R. Biermann, 2020, bioRxiv.

Candida albicans: Molecular interactions with Pseudomonas aeruginosa and Staphylococcus aureus

D. Hogan, A. K. Lindsay, Allia K. Lindsay, 2014 .

The Ras/cAMP/PKA signaling pathway and virulence in Candida albicans.

D. Hogan, P. Sundstrom, 2009, Future microbiology.

Nonmotile Subpopulations of Pseudomonas aeruginosa Repress Flagellar Motility in Motile Cells through a Type IV Pilus- and Pel-Dependent Mechanism

Kimberley A. Lewis, D. Hogan, G. Wong, 2022, Journal of bacteriology.

Nonmotile Subpopulations of Pseudomonas aeruginosa Repress Flagellar Motility in Motile Cells through a Type IV Pilus- and Pel-Dependent Mechanism

Kimberley A. Lewis, D. Hogan, G. Wong, 2021, bioRxiv.

Community composition shapes microbial-specific phenotypes in a cystic fibrosis polymicrobial model system

D. Hogan, T. Hampton, Daniel Schultz, 2022, bioRxiv.

Intraspecies heterogeneity in microbial interactions.

D. Hogan, D. Mould, 2021, Current opinion in microbiology.

Characterization and quantification of the fungal microbiome in serial samples from individuals with cystic fibrosis

Sharon L. Grim, M. Sogin, H. Morrison, 2014, Microbiome.

An epoxide hydrolase secreted by Pseudomonas aeruginosa decreases mucociliary transport and hinders bacterial clearance from the lung.

B. Levy, D. Hogan, C. Bahl, 2018, American journal of physiology. Lung cellular and molecular physiology.

Structure and redox properties of the diheme electron carrier cytochrome c4 from Pseudomonas aeruginosa.

D. Hogan, F. Zhong, E. Pletneva, 2019, Journal of inorganic biochemistry.

Analysis of Lung Microbiota in Bronchoalveolar Lavage, Protected Brush and Sputum Samples from Subjects with Mild-To-Moderate Cystic Fibrosis Lung Disease

M. Sogin, H. Morrison, D. Hogan, 2016, PloS one.

Compendium-wide analysis of P. aeruginosa core and accessory genes reveal more nuanced transcriptional patterns

Alexandra J. Lee, C. Greene, D. Hogan, 2022, bioRxiv.

Pseudomonas aeruginosa lasR mutant fitness in microoxia is supported by an Anr-regulated oxygen-binding hemerythrin

Alexandra J. Lee, C. Greene, J. Hammond, 2019, Proceedings of the National Academy of Sciences.

Tobramycin reduces key virulence determinants in the proteome of Pseudomonas aeruginosa outer membrane vesicles

S. Gerber, D. Hogan, B. Stanton, 2019, PloS one.

Pseudomonas aeruginosa Evasion of Phagocytosis Is Mediated by Loss of Swimming Motility and Is Independent of Flagellum Expression

G. O’Toole, D. Hogan, B. Berwin, 2010, Infection and Immunity.

Editorial overview of Pearls Microbiome Series: E pluribus unum

J. Heitman, D. Hogan, L. Knoll, 2021, PLoS pathogens.

Pseudomonas aeruginosa Reduces VX-809 Stimulated F508del-CFTR Chloride Secretion by Airway Epithelial Cells

D. Hogan, B. Stanton, B. Coutermarsh, 2015, PloS one.

Both Pseudomonas aeruginosa and Candida albicans Accumulate Greater Biomass in Dual-Species Biofilms under Flow

C. Nadell, D. Hogan, D. Mould, 2021, mSphere.

Pseudomonas aeruginosa and Candida albicans both accumulate greater biomass in dual species biofilms under flow

C. Nadell, D. Hogan, D. Mould, 2020, bioRxiv.

Mitochondrial Activity and Cyr1 Are Key Regulators of Ras1 Activation of C. albicans Virulence Pathways

D. Hogan, Nora Grahl, Elora G. Demers, 2015, PLoS pathogens.

Global Role of Cyclic AMP Signaling in pH-Dependent Responses in Candida albicans

D. Hogan, K. Koeppen, Nora Grahl, 2016, mSphere.

Farnesol and dodecanol effects on the Candida albicans Ras1‐cAMP signalling pathway and the regulation of morphogenesis

L. Stateva, D. Hogan, Amy E. Piispanen, 2007, Molecular microbiology.

Ethanol decreases Pseudomonas aeruginosa flagellar motility through a cyclic-di-GMP- and stator-dependent pathway

Annie I. Chen, Kimberley A. Lewis, G. O’Toole, 2018, bioRxiv.

Farnesol and Cyclic AMP Signaling Effects on the Hypha-to-Yeast Transition in Candida albicans

D. Hogan, A. Deveau, A. K. Lindsay, 2012, Eukaryotic Cell.

Farnesol Induces Hydrogen Peroxide Resistance in Candida albicans Yeast by Inhibiting the Ras-Cyclic AMP Signaling Pathway

D. Hogan, A. Deveau, Angelyca A. Jackson, 2010, Eukaryotic Cell.

Acidosis Potentiates the Host Proinﬂammatory Interleukin-1 (cid:2) Response to Pseudomonas aeruginosa Infection

D. Hogan, B. Berwin, Emily F. Dolben, 2014 .

Prevalence of Streptococci and Increased Polymicrobial Diversity Associated with Cystic Fibrosis Patient Stability

M. Sogin, H. Morrison, G. O’Toole, 2012, Journal of bacteriology.

In host evolution of Exophiala dermatitidis in cystic fibrosis lung micro-environment

J. Stajich, D. Hogan, A. Crocker, 2022, bioRxiv.

The Pseudomonas aeruginosa efflux pump MexGHI-OpmD transports a natural phenazine that controls gene expression and biofilm development

K. Shepard, D. Hogan, H. Sakhtah, 2016, Proceedings of the National Academy of Sciences.

A Multimodal Strategy Used by a Large c-di-GMP Network

Jaclyn N. Taroni, C. Greene, G. O’Toole, 2017, bioRxiv.

Intraspecies Signaling between Common Variants of Pseudomonas aeruginosa Increases Production of Quorum-Sensing-Controlled Virulence Factors

D. Hogan, D. Mould, Nico J Botelho, 2020, mBio.

Regulation of Pseudomonas aeruginosa-Mediated Neutrophil Extracellular Traps

Kimberley A. Lewis, J. Hammond, D. Hogan, 2019, Front. Immunol..

An rRNA fragment in extracellular vesicles secreted by human airway epithelial cells increases the fluoroquinolone sensitivity of P. aeruginosa

S. Gerber, D. Hogan, Y. Goo, 2022, bioRxiv.

PEPped up: induction of Candida albicans virulence by bacterial cell wall fragments.

D. Hogan, Amy E. Piispanen, 2008, Cell host & microbe.

Debaryomyces is enriched in Crohn’s disease intestinal tissue and impairs healing in mice

D. Underhill, D. McGovern, B. Muegge, 2021, Science.

Bacterial type 6 secreted phospholipases play family feud.

J. Hammond, D. Hogan, 2013, Cell host & microbe.

Distribution of the tfdA Gene in Soil Bacteria That Do Not Degrade 2,4-Dichlorophenoxyacetic Acid (2,4-D)

C. Nakatsu, T. Schmidt, R. Hausinger, 1997, Microbial Ecology.

Role of quorum sensing and chemical communication in fungal biotechnology and pathogenesis

D. Hogan, T. Keshavarz, M. Martínez, 2018, FEMS microbiology reviews.

Intrinsic tryptophan fluorescence as a probe of metal and alpha-ketoglutarate binding to TfdA, a mononuclear non-heme iron dioxygenase.

R. Hausinger, D. Hogan, Julie C. Dunning Hotopp, 2003, Journal of inorganic biochemistry.

Stereospecific degradation of the phenoxypropionate herbicide dichlorprop

R. Hausinger, D. Hogan, R. E. Saari, 1999 .

Site-directed mutagenesis of 2,4-dichlorophenoxyacetic acid/alpha-ketoglutarate dioxygenase. Identification of residues involved in metallocenter formation and substrate binding.

R. Hausinger, D. Hogan, S. R. Smith, 2000, The Journal of biological chemistry.

A Pseudomonas aeruginosa quorum‐sensing molecule influences Candida albicans morphology

R. Kolter, D. Hogan, Å. Vik, 2004, Molecular microbiology.

Candida spp. in Microbial Populations and Communities: Molecular Interactions and Biological Importance

D. Hogan, Amy E. Piispanen, 2012 .

Farnesol, a common sesquiterpene, inhibits PQS production in Pseudomonas aeruginosa

D. Hogan, C. Cugini, E. Pesci, 2007, Molecular microbiology.

Talking to Themselves: Autoregulation and Quorum Sensing in Fungi

D. Hogan, 2006, Eukaryotic Cell.

Fungal-Bacterial Interactions

R. Kolter, D. Hogan, 2006 .

Fungal--bacterial interactions: a mixed bag of mingling microbes.

D. Hogan, M. Wargo, 2006, Current opinion in microbiology.

Roles of Ras1 Membrane Localization during Candida albicans Hyphal Growth and Farnesol Response

D. Hogan, A. Deveau, Sarah Carden, 2011, Eukaryotic Cell.

Pseudomonas-Candida Interactions: An Ecological Role for Virulence Factors

R. Kolter, D. Hogan, 2002, Science.

Candida albicans Interactions with Bacteria in the Context of Human Health and Disease

D. Hogan, D. K. Morales, 2010, PLoS pathogens.

Transcriptional Response of Candida auris to the Mrr1 Inducers Methylglyoxal and Benomyl

D. Hogan, Amy R. Biermann, 2022, bioRxiv.

CF-Seq, an accessible web application for rapid re-analysis of cystic fibrosis pathogen RNA sequencing studies

Alexandra J. Lee, D. Hogan, B. Stanton, 2022, Scientific Data.

The ATP‐binding cassette transporter Cbc (choline/betaine/carnitine) recruits multiple substrate‐binding proteins with strong specificity for distinct quaternary ammonium compounds

D. Hogan, M. Wargo, G. Beattie, 2010, Molecular microbiology.

Signaling through Lrg1, Rho1 and Pkc1 Governs Candida albicans Morphogenesis in Response to Diverse Cues

D. Hogan, L. Cowen, Nora Grahl, 2016, PLoS genetics.

Regulated proteolysis of Candida albicans Ras1 is involved in morphogenesis and quorum sensing regulation

D. Hogan, Nora Grahl, Jeffrey M. Hollomon, 2013, Molecular microbiology.

Analysis of Candida albicans Mutants Defective in the Cdk8 Module of Mediator Reveal Links between Metabolism and Biofilm Formation

D. Hogan, Nora Grahl, Anda Zhang, 2014, PLoS genetics.

Use of RNA-Protein Complexes for Genome Editing in Non-albicans Candida Species

D. Hogan, Nora Grahl, Elora G. Demers, 2017, mSphere.

CF-Seq, an accessible web application for rapid re-analysis of cystic fibrosis pathogen RNA sequencing studies

Alexandra J. Lee, D. Hogan, B. Stanton, 2022, Scientific Data.

SOPHIE: Generative Neural Networks Separate Common and Specific Transcriptional Responses

Alexandra J. Lee, Rani K. Powers, J. Costello, 2021, bioRxiv.

Gene expression studies for the analysis of domoic acid production in the marine diatom Pseudo-nitzschia multiseries

D. Housman, J. Pelletier, D. Hogan, 2013, BMC Molecular Biology.

Using genome-wide expression compendia to study microorganisms

Alexandra J. Lee, Julia Oh, C. Greene, 2022, Computational and structural biotechnology journal.

Let-7b-5p in vesicles secreted by human airway cells reduces biofilm formation and increases antibiotic sensitivity of P. aeruginosa

C. Nadell, S. Gerber, D. Hogan, 2021, Proceedings of the National Academy of Sciences.

Environmentally Endemic Pseudomonas aeruginosa Strains with Mutations in lasR Are Associated with Increased Disease Severity in Corneal Ulcers

M. Srinivasan, J. Hammond, D. Hogan, 2016, mSphere.

Endemic Pseudomonas aeruginosa Strains with Mutations in lasR Are Associated with Increased Disease Severity in Ulcers.

M. Srinivasan, J. Hammond, D. Hogan, 2016 .

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Tapio Salakoski, Feng Zhang, Paolo Fontana, 2019, Genome Biology.

Pseudomonas aeruginosa Alginate Overproduction Promotes Coexistence with Staphylococcus aureus in a Model of Cystic Fibrosis Respiratory Infection

J. Goldberg, G. O’Toole, D. Hogan, 2017, mBio.

Links between Anr and Quorum Sensing in Pseudomonas aeruginosa Biofilms

Deborah A. Hogan, J. Hammond, D. Hogan, 2015, Journal of bacteriology.

A Novel Mechanism of Host-Pathogen Interaction through sRNA in Bacterial Outer Membrane Vesicles

Katja Koeppen, Bruce A. Stanton, Scott A. Gerber, 2016, PLoS pathogens.

ADAGE analysis of publicly available gene expression data collections illuminates Pseudomonas aeruginosa-host interactions

Casey S. Greene, Jie Tan, Deborah A. Hogan, 2015, bioRxiv.

Acidosis Potentiates the Host Proinflammatory Interleukin-1β Response to Pseudomonas aeruginosa Infection

D. Hogan, B. Berwin, D. Leib, 2014, Infection and Immunity.

Hemolytic phospholipase C inhibition protects lung function during Pseudomonas aeruginosa infection.

Deborah A Hogan, D. Hogan, M. Wargo, 2011, American journal of respiratory and critical care medicine.

A self-lysis pathway that enhances the virulence of a pathogenic bacterium

D. Hogan, S. Dove, Tracy K. Kambara, 2015, Proceedings of the National Academy of Sciences.

Compendium-Wide Analysis of Pseudomonas aeruginosa Core and Accessory Genes Reveals Transcriptional Patterns across Strains PAO1 and PA14

Alexandra J. Lee, D. Hogan, Georgia Doing, 2022, mSystems.

Computationally Efficient Assembly of Pseudomonas aeruginosa Gene Expression Compendia

Alexandra J. Lee, C. Greene, D. Hogan, 2022, bioRxiv.

Social Cooperativity of Bacteria during Reversible Surface Attachment in Young Biofilms: a Quantitative Comparison of Pseudomonas aeruginosa PA14 and PAO1

Kimberley A. Lewis, R. Golestanian, G. O’Toole, 2020, mBio.

Unsupervised Extraction of Stable Expression Signatures from Public Compendia with an Ensemble of Neural Networks.

Jie Tan, Deborah A Hogan, Casey S Greene, 2017, Cell systems.

Examination of Pseudomonas aeruginosa lasI regulation and 3-oxo-C12-homoserine lactone production using a heterologous Escherichia coli system.

D. Hogan, M. Wargo, 2007, FEMS microbiology letters.

Anr and Its Activation by PlcH Activity in Pseudomonas aeruginosa Host Colonization and Virulence

J. Hammond, D. Hogan, B. Stanton, 2013, Journal of bacteriology.

Refining the Application of Microbial Lipids as Tracers of Staphylococcus aureus Growth Rates in Cystic Fibrosis Sputum

D. Newman, D. Hogan, A. Sessions, 2018, bioRxiv.

Refining the Application of Microbial Lipids as Tracers of Staphylococcus aureus Growth Rates in Cystic Fibrosis Sputum

D. Hogan, A. Sessions, S. Kopf, 2018 .

Why are bacteria refractory to antimicrobials?

Roberto Kolter, R. Kolter, D. Hogan, 2002, Current opinion in microbiology.

Correcting for experiment-specific variability in expression compendia can remove underlying signals

Casey S. Greene, Alexandra J. Lee, YoSon Park, 2020, bioRxiv.

Quorum Sensing: Alcohols in a Social Situation

D. Hogan, 2006, Current Biology.

Tobramycin-induced secretion of P. aeruginosa 5′ tRNA-fMet halves suppresses lung inflammation via AGO2 gene silencing

S. Gerber, D. Hogan, Zhongyou Li, 2021 .

Tobramycin suppresses cystic fibrosis lung inflammation by increasing 5′ tRNA-fMet halves secreted by P. aeruginosa

S. Gerber, D. Hogan, Zhongyou Li, 2021, bioRxiv.

The Pseudomonas aeruginosa Secreted Protein PA2934 Decreases Apical Membrane Expression of the Cystic Fibrosis Transmembrane Conductance Regulator

G. O’Toole, D. Hogan, S. Ye, 2007, Infection and Immunity.

Epoxide-Mediated CifR Repression of cif Gene Expression Utilizes Two Binding Sites in Pseudomonas aeruginosa

G. O’Toole, D. Hogan, C. Bahl, 2012, Journal of bacteriology.

Calprotectin-Mediated Zinc Chelation Inhibits Pseudomonas aeruginosa Protease Activity in Cystic Fibrosis Sputum

D. Hogan, D. Vermilyea, A. Gifford, 2021, bioRxiv.

Genetic Analysis of NDT80 Family Transcription Factors in Candida albicans Using New CRISPR-Cas9 Approaches

D. Hogan, J. Konopka, Amy R. Biermann, 2018, mSphere.

Pseudomonas aeruginosa-Candida albicans Interactions: Localization and Fungal Toxicity of a Phenazine Derivative

D. Hogan, J. Gibson, A. Sood, 2008, Applied and Environmental Microbiology.

Mrr1 regulation of methylglyoxal catabolism and methylglyoxal‐induced fluconazole resistance in Candida lusitaniae

D. Hogan, Elora G. Demers, Amy R. Biermann, 2020, Molecular microbiology.

Candida albicans and Pseudomonas aeruginosa Interact To Enhance Virulence of Mucosal Infection in Transparent Zebrafish

J. Hammond, D. Hogan, R. Wheeler, 2017, Infection and Immunity.

Part II Overview

R. Kolter, D. Hogan, 2006 .

Phenotypic differences in reversible attachment behavior reveal distinct P. aeruginosa surface colonization strategies

Kimberley A. Lewis, R. Golestanian, G. O’Toole, 2019, bioRxiv.

Profiling of Bacterial and Fungal Microbial Communities in Cystic Fibrosis Sputum Using RNA

Nicholas J. Jacobs, M. Sogin, H. Morrison, 2018, mSphere.

Use of a Multiplex Transcript Method for Analysis of Pseudomonas aeruginosa Gene Expression Profiles in the Cystic Fibrosis Lung

Heather D. Bean, D. Hogan, A. Ashare, 2016, Infection and Immunity.

Th2 allergic immune response to inhaled fungal antigens is modulated by TLR‐4‐independent bacterial products

S. Akira, D. Hogan, M. Wargo, 2009, European journal of immunology.

The complex roles of NADPH oxidases in fungal infection

D. Hogan, R. Wheeler, 2014, Cellular microbiology.

Intra-species signaling between Pseudomonas aeruginosa genotypes increases production of quorum sensing controlled virulence factors

D. Hogan, D. Mould, Nico J Botelho, 2020, bioRxiv.

Reductive Dehalogenation of Trichloroacetic Acid byTrichlorobacter thiogenes gen. nov., sp. nov

J. Cole, D. Hogan, J. Tiedje, 2000, Applied and Environmental Microbiology.

Candida albicans-produced farnesol stimulates Pseudomonas quinolone signal production in LasR-defective Pseudomonas aeruginosa strains

D. Hogan, C. Cugini, D. K. Morales, 2010, Microbiology.

The Candida albicans Cdk8-dependent phosphoproteome reveals repression of hyphal growth through a Flo8-dependent pathway

S. Rusin, D. Hogan, A. Kettenbach, 2021, bioRxiv.

Bacterial Biofilms on Fungal Surfaces

D. Hogan, M. Wargo, N. Beck, 2016 .

Absence of Membrane Phosphatidylcholine Does Not Affect Virulence and Stress Tolerance Phenotypes in the Opportunistic Pathogen Pseudomonas aeruginosa

D. Hogan, M. Wargo, Adel Malek, 2012, PloS one.

Candida albicans developmental regulation: adenylyl cyclase as a coincidence detector of parallel signals.

D. Hogan, F. Muhlschlegel, 2011, Current opinion in microbiology.

Citrate cross-feeding between Pseudomonas aerguinosa genotypes supports lasR mutant fitness

D. Hogan, D. Mould, Carson E. Finger, 2023, bioRxiv.

Pseudomonas aeruginosa Ethanol Oxidation by AdhA in Low-Oxygen Environments

Nicholas J. Jacobs, J. Hammond, D. Hogan, 2019, Journal of bacteriology.

Pseudomonas aeruginosa Ethanol Oxidation by AdhA in Low-Oxygen Environments

Nicholas J. Jacobs, J. Hammond, D. Hogan, 2019, bioRxiv.

ADAGE signature analysis: differential expression analysis with data-defined gene sets

C. Greene, M. Huyck, J. Tan, 2017, bioRxiv.

Metabolic basis for the evolution of a common pathogenic Pseudomonas aeruginosa variant

D. Hogan, A. Ashare, Daniel Schultz, 2022, bioRxiv.

Computational Approaches to Study Microbes and Microbiomes

Casey S. Greene, James A. Foster, Yana Bromberg, 2016, PSB.

How individual P. aeruginosa cells with diverse stator distributions collectively form a heterogeneous macroscopic swarming population

Kimberley A. Lewis, C. O’Hern, D. Hogan, 2023, bioRxiv.

Ethanol Decreases Pseudomonas aeruginosa Flagellar Motility through the Regulation of Flagellar Stators

Annie I. Chen, Kimberley A. Lewis, G. O’Toole, 2019, Journal of bacteriology.

Balancing Positive and Negative Selection: In Vivo Evolution of Candida lusitaniae MRR1

J. Stajich, D. Hogan, A. Ashare, 2020, mBio.

Model Systems to Study the Chronic, Polymicrobial Infections in Cystic Fibrosis: Current Approaches and Exploring Future Directions

M. A. Henson, A. Prince, R. Kümmerli, 2021, mBio.

Mrs4 loss of function in fungi during adaptation to the cystic fibrosis lung

J. Stajich, D. Hogan, A. Ashare, 2023, mBio.

Comparative effects of CFTR modulators on phagocytic, metabolic and inflammatory profiles of CF and nonCF macrophages

D. Hogan, A. Ashare, T. Hampton, 2023, Scientific reports.

New Mitochondrial Targets in Fungal Pathogens

D. Hogan, Daniel Murante, 2019, mBio.

ADAGE signature analysis: differential expression analysis with data-defined gene sets

Jie Tan, Matthew Huyck, Dongbo Hu, 2017, BMC Bioinformatics.

PathCORE-T: identifying and visualizing globally co-occurring pathways in large transcriptomic compendia

Casey S. Greene, Jie Tan, Kathleen M. Chen, 2018, BioData Mining.

PathCORE: identifying and visualizing globally co-occurring pathways in large transcriptomic compendia

Casey S. Greene, Kathleen M. Chen, Jie Tan, 2017, bioRxiv.

Global Analysis of the Fungal Microbiome in Cystic Fibrosis Patients Reveals Loss of Function of the Transcriptional Repressor Nrg1 as a Mechanism of Pathogen Adaptation

C. Nislow, D. Hogan, L. Cowen, 2015, PLoS pathogens.

Bacterial Outer Membrane Vesicles and Immune Modulation of the Host

D. Hogan, M. Hendricks, J. Bomberger, 2023, Membranes.

Roles of Three Transporters, CbcXWV, BetT1, and BetT3, in Pseudomonas aeruginosa Choline Uptake for Catabolism

D. Hogan, M. Wargo, G. Beattie, 2011, Journal of bacteriology.

Site-directed Mutagenesis of 2,4-Dichlorophenoxyacetic Acid/α-Ketoglutarate Dioxygenase

R. Hausinger, D. Hogan, J. McCracken, 2000, Journal of Biological Chemistry.

Analysis of Pseudomonas aeruginosa transcription in an ex vivo cystic fibrosis sputum model identifies metal restriction as a gene expression stimulus

D. Hogan, Georgia Doing, T. Hampton, 2023, bioRxiv.

Citrate cross-feeding between Pseudomonas aerguinosa genotypes supports lasR mutant fitness

D. Hogan, D. Mould, Carson E. Finger, 2023, bioRxiv.

Th2 allergic immune response to inhaled fungal antigens is modulated by TLR‐4‐independent bacterial products

S. Akira, D. Hogan, M. Wargo, 2009, European journal of immunology.

The Ras/cAMP/PKA signaling pathway and virulence in Candida albicans.

D. Hogan, P. Sundstrom, 2009, Future microbiology.

Pseudomonas aeruginosa-Candida albicans Interactions: Localization and Fungal Toxicity of a Phenazine Derivative

D. Hogan, J. Gibson, A. Sood, 2008, Applied and Environmental Microbiology.

GbdR Regulates Pseudomonas aeruginosa plcH and pchP Transcription in Response to Choline Catabolites

D. Hogan, M. Wargo, Maegan J. Gross, 2008, Infection and Immunity.

Identification of genes required for Pseudomonas aeruginosa carnitine catabolism.

D. Hogan, M. Wargo, 2009, Microbiology.

Pseudomonas aeruginosa Evasion of Phagocytosis Is Mediated by Loss of Swimming Motility and Is Independent of Flagellum Expression

G. O’Toole, D. Hogan, B. Berwin, 2010, Infection and Immunity.

Computationally Efficient Assembly of Pseudomonas aeruginosa Gene Expression Compendia

Alexandra J. Lee, C. Greene, D. Hogan, 2022, mSystems.

Antifungal mechanisms by which a novel Pseudomonas aeruginosa phenazine toxin kills Candida albicans in biofilms

Nicholas J. Jacobs, D. Hogan, S. Rajamani, 2010, Molecular microbiology.

Pseudomonas aeruginosa transcriptome analysis of metal restriction in ex vivo cystic fibrosis sputum

D. Hogan, Georgia Doing, T. Hampton, 2024, Microbiology spectrum.

An rRNA fragment in extracellular vesicles secreted by human airway epithelial cells increases the fluoroquinolone sensitivity of P. aeruginosa

S. Gerber, D. Hogan, Y. Goo, 2023, American journal of physiology. Lung cellular and molecular physiology.

An epoxide hydrolase secreted by Pseudomonas aeruginosa decreases mucociliary transport and hinders bacterial clearance from the lung.

B. Levy, D. Hogan, C. Bahl, 2018, American journal of physiology. Lung cellular and molecular physiology.