Fiona  J Whelan
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Capturing the diversity of the human gut microbiota through culture-enriched molecular profiling
JT Lau, FJ Whelan, I Herath, CH Lee, SM Collins, P Bercik, MG Surette
Genome medicine 8 (1), 1-10, 2016
The Loss of Topography in the Microbial Communities of the Upper Respiratory Tract in the Elderly
FJ Whelan, CP Verschoor, JC Stearns, L Rossi, K Luinstra, M Loeb, ...
Annals of the American Thoracic Society 11 (4), 513-521, 2014
Culture and molecular-based profiles show shifts in bacterial communities of the upper respiratory tract that occur with age
JC Stearns, CJ Davidson, S McKeon, FJ Whelan, ME Fontes, ...
The ISME journal 9 (5), 1246-1259, 2015
Pregnancy-related changes in the maternal gut microbiota are dependent upon the mother's periconceptional diet
W Gohir, FJ Whelan, MG Surette, C Moore, JD Schertzer, DM Sloboda
Gut microbes 6 (5), 310-320, 2015
Longitudinal sampling of the lung microbiota in individuals with cystic fibrosis
FJ Whelan, AA Heirali, L Rossi, HR Rabin, MD Parkins, MG Surette
PloS one 12 (3), e0172811, 2017
A comprehensive evaluation of the sl1p pipeline for 16S rRNA gene sequencing analysis
FJ Whelan, MG Surette
Microbiome 5 (1), 1-13, 2017
Prevalence and outcomes of Achromobacter species infections in adults with cystic fibrosis: a North American cohort study
BD Edwards, J Greysson-Wong, R Somayaji, B Waddell, FJ Whelan, ...
Journal of clinical microbiology 55 (7), 2074-2085, 2017
The evolution of the class A scavenger receptors
FJ Whelan, CJ Meehan, GB Golding, BJ McConkey, DM E Bowdish
BMC evolutionary biology 12 (1), 1-11, 2012
Culture-enriched metagenomic sequencing enables in-depth profiling of the cystic fibrosis lung microbiota
FJ Whelan, B Waddell, SA Syed, S Shekarriz, HR Rabin, MD Parkins, ...
Nature Microbiology 5 (2), 379-390, 2020
The effects of inhaled aztreonam on the cystic fibrosis lung microbiome
AA Heirali, ML Workentine, N Acosta, A Poonja, DG Storey, R Somayaji, ...
Microbiome 5 (1), 1-14, 2017
The Evolving Cystic Fibrosis Microbiome: A Comparative Cohort Study Spanning 16 Years
N Acosta, FJ Whelan, R Somayaji, A Poonja, MG Surette, HR Rabin, ...
Annals of the American Thoracic Society 14 (8), 1288-1297, 2017
Streptococcus pneumoniae colonization disrupts the microbial community within the upper respiratory tract of aging mice
N Thevaranjan, FJ Whelan, A Puchta, E Ashu, L Rossi, MG Surette, ...
Infection and immunity 84 (4), 906-916, 2016
The evolution of the scavenger receptor cysteine-rich domain of the class A scavenger receptors
NVL Yap, FJ Whelan, DME Bowdish, GB Golding
Frontiers in immunology 6, 342, 2015
Horizontal gene transfer as a source of conflict and cooperation in prokaryotes
RJ Hall, FJ Whelan, JO McInerney, Y Ou, MR Domingo-Sananes
Frontiers in Microbiology 11, 1569, 2020
Coinfinder: detecting significant associations and dissociations in pangenomes
FJ Whelan, M Rusilowicz, JO McInerney
Microbial Genomics 6 (3), 2020
Clinical Insights into Pulmonary Exacerbations in Cystic Fibrosis from the Microbiome. What Are We Missing?
FJ Whelan, MG Surette
Annals of the American Thoracic Society 12 (Supplement 2), S207-S211, 2015
Reemergence of Lower-Airway Microbiota in Lung Transplant Patients with Cystic Fibrosis
SA Syed, FJ Whelan, B Waddell, HR Rabin, MD Parkins, MG Surette
Annals of the American Thoracic Society 13 (12), 2132-2142, 2016
Evidence for selection in the abundant accessory gene content of a prokaryote pangenome
FJ Whelan, RJ Hall, JO McInerney
Molecular Biology and Evolution, 2021
Streptococcus pneumoniae colonization is required to alter the nasal microbiota in cigarette smoke-exposed mice
P Shen, FJ Whelan, LP Schenck, JJC McGrath, G Vanderstocken, ...
Infection and immunity 85 (10), e00434-17, 2017
Partitioning and correlating subgroup characteristics from Aligned Pattern Clusters
ESA Lee, FJ Whelan, DME Bowdish, AKC Wong
Bioinformatics 32 (16), 2427-2434, 2016
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