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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
2002016
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
1822014
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
1802015
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
1592015
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
762017
A comprehensive evaluation of the sl1p pipeline for 16S rRNA gene sequencing analysis
FJ Whelan, MG Surette
Microbiome 5 (1), 1-13, 2017
742017
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
662017
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
632012
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
522020
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
492017
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
422017
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
402016
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
382015
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
302020
Coinfinder: detecting significant associations and dissociations in pangenomes
FJ Whelan, M Rusilowicz, JO McInerney
Microbial Genomics 6 (3), 2020
292020
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
222015
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
202016
Evidence for selection in the abundant accessory gene content of a prokaryote pangenome
FJ Whelan, RJ Hall, JO McInerney
Molecular Biology and Evolution, 2021
13*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
132017
Partitioning and correlating subgroup characteristics from Aligned Pattern Clusters
ESA Lee, FJ Whelan, DME Bowdish, AKC Wong
Bioinformatics 32 (16), 2427-2434, 2016
122016
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Articles 1–20