The Ecology of Cystic Fibrosis (Eco-CF) study profiled the microbiome in pediatric CF patients. 169 pediatric cystic fibrosis patients seen over a four year period at Columbia Univeristy Medical Center in NYC, USA. 844 samples, including sputum, oral swabs and bronchoalveolar lavage (BAL) fluid; V4 region of 16S rRNA gene. Prospective cohort design.