Article
Identification of usual interstitial pneumonia pattern using RNA-Seq and machine learning: challenges and solutions.
BMC genomics - 9 May 2018
Choi Yoonha, Liu Tiffany Ting, Pankratz Daniel G, Colby Thomas V, Barth Neil M, Lynch David A, Walsh P Sean, Raghu Ganesh, Kennedy Giulia C, Huang Jing
Abstract excerpt
BACKGROUND: We developed a classifier using RNA sequencing data that identifies the usual interstitial pneumonia (UIP) pattern for the diagnosis of idiopathic pulmonary fibrosis. We addressed significant challenges, including limited sample size, biological and technical sample heterogeneity, and reagent and assay batch effects. RESULTS: We identified inter- and intra-patient heterogeneity, particularly within...
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