Publications by authors named "Kirk Harris"

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Transcriptomic and functional responses of the cystic fibrosis airway epithelium to CFTR modulator therapy.
Eszter K Vladar, Austin E Gillen, Sangya Yadav, Mikayla R Murphree, David Baraghoshi, J Kirk Harris

JCI Insight· November 2025

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Proteomic profiling of the local and systemic immune response to pediatric respiratory viral infections.
Emily Lydon, Christina M Osborne, Brandie D Wagner, Lilliam Ambroggio, J Kirk Harris

mSystems· January 2025

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Metabolomics analysis of bronchoalveolar lavage fluid predicts unique features of the lower airway in pediatric cystic fibrosis.
John B O'Connor, Madison Mottlowitz, Brandie D Wagner, J Kirk Harris, Theresa A Laguna

J Cyst Fibros· November 2024

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Host DNA depletion on frozen human respiratory samples enables successful metagenomic sequencing for microbiome studies.
Minsik Kim, Raymond C Parrish, Michael J Tisza, Viral S Shah, Thi Tran, J Kirk Harris

Commun Biol· November 2024

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Proteomic profiling of the local and systemic immune response to pediatric respiratory viral infections.
Emily Lydon, Christina M Osborne, Brandie D Wagner, Lilliam Ambroggio, J Kirk Harris

bioRxiv· October 2024

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An integrated metaproteomics workflow for studying host-microbe dynamics in bronchoalveolar lavage samples applied to cystic fibrosis disease.
Monica E Kruk, Subina Mehta, Kevin Murray, LeeAnn Higgins, Katherine Do, J Kirk Harris

mSystems· July 2024

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Viral Detection by Reverse Transcriptase Polymerase Chain Reaction in Upper Respiratory Tract and Metagenomic RNA Sequencing in Lower Respiratory Tract in Critically Ill Children With Suspected Lower Respiratory Tract Infection.
Christina M Osborne, Charles Langelier, Jack Kamm, Kayla Williamson, Lilliam Ambroggio, J Kirk Harris

Pediatr Crit Care Med· January 2024

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Host DNA depletion on frozen human respiratory samples enables successful metagenomic sequencing for microbiome studies.
Minsik Kim, Raymond C Parrish, Viral S Shah, Matthew Ross, Juwan Cormier, J Kirk Harris

Res Sq· January 2024

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Integrating airway microbiome and blood proteomics data to identify multi-omic networks associated with response to pulmonary infection.
Brenton I M Graham, J Kirk Harris, Edith T Zemanick, Brandie D Wagner

Microbe· December 2023

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Limited effects of azithromycin on the oropharyngeal microbiome in children with CF and early pseudomonas infection.
Brandie D Wagner, Edith T Zemanick, Scott D Sagel, Charles E Robertson, Mark J Stevens, J Kirk Harris

BMC Microbiol· October 2023

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Tobacco smoke exposure, the lower airways microbiome and outcomes of ventilated children.
Matthew K Leroue, Kayla M Williamson, Paul C Curtin, Marci K Sontag, Brandie D Wagner, J Kirk Harris

Pediatr Res· August 2023

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Upper airway microbiota development in infants with cystic fibrosis diagnosed by newborn screen.
J Kirk Harris, Brandie D Wagner, Charles E Robertson, Mark J Stevens, Conor Lingard

J Cyst Fibros· July 2023

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Mucosal Microbiota Associated With Eosinophilic Esophagitis and Eosinophilic Gastritis.
Glenn T Furuta, Sophie A Fillon, Kayla M Williamson, Charles E Robertson, Mark J Stevens, J Kirk Harris

J Pediatr Gastroenterol Nutr· March 2023

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Detection and identification of fungi in the lower airway of children with and without cystic fibrosis.
John B O'Connor, Brandie D Wagner, J Kirk Harris, Daniel N Frank, Diana E Clabots

Front Microbiol· February 2023

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Effects of ivacaftor on systemic inflammation and the plasma proteome in people with CF and G551D.
Jordana E Hoppe, Brandie D Wagner, J Kirk Harris, Steven M Rowe, Sonya L Heltshe

J Cyst Fibros· November 2022

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Cancer Pain and Opioid Use Disorder.
Amvrine Ganguly, Marco Michael, Simona Goschin, Kirk Harris, Daniel C McFarland

Oncology (Williston Park)· September 2022

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Lower respiratory tract infections in children requiring mechanical ventilation: a multicentre prospective surveillance study incorporating airway metagenomics.
Alexandra Tsitsiklis, Christina M Osborne, Jack Kamm, Kayla Williamson, Katrina Kalantar, J Kirk Harris

Lancet Microbe· April 2022

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Bacterial Signatures of Paediatric Respiratory Disease: An Individual Participant Data Meta-Analysis.
David T J Broderick, David W Waite, Robyn L Marsh, Carlos A Camargo, Paul Cardenas, J Kirk Harris

Front Microbiol· December 2021

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Influence of Acid Blockade on the Aerodigestive Tract Microbiome in Children With Cystic Fibrosis.
Racha T Khalaf, Glenn T Furuta, Brandie D Wagner, Charles E Robertson, Rachel Andrews, J Kirk Harris

J Pediatr Gastroenterol Nutr· April 2021

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Modified PCR protocol to increase sensitivity for determination of bacterial community composition.
Kayla M Williamson, Brandie D Wagner, Charles E Robertson, Mark J Stevens, Marci K Sontag, J Kirk Harris

Microbiome· April 2021

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Temporal airway microbiome changes related to ventilator-associated pneumonia in children.
Peter M Mourani, Marci K Sontag, Kayla M Williamson, J Kirk Harris, Ron Reeder

Eur Respir J· March 2021

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Microbial and Biogeochemical Indicators of Methane in Groundwater Aquifers of the Denver Basin, Colorado.
Lee F Stanish, Owen A Sherwood, Greg Lackey, Stephen Osborn, Charles E Robertson, J Kirk Harris

Environ Sci Technol· January 2021

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Nanodiagnostics to monitor biofilm oxygen metabolism for antibiotic susceptibility testing.
Megan P Jewell, Samuel C Saccomano, Alexa A David, J Kirk Harris, Edith T Zemanick

Analyst· June 2020

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Changes in Airway Microbiome and Inflammation with Ivacaftor Treatment in Patients with Cystic Fibrosis and the G551D Mutation.
J Kirk Harris, Brandie D Wagner, Edith T Zemanick, Charles E Robertson, Mark J Stevens

Ann Am Thorac Soc· February 2020

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Luminescent Nanosensors for Ratiometric Monitoring of Three-Dimensional Oxygen Gradients in Laboratory and Clinical Pseudomonas aeruginosa Biofilms.
Megan P Jewell, Anne A Galyean, J Kirk Harris, Edith T Zemanick, Kevin J Cash

Appl Environ Microbiol· October 2019

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