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Table 2 The number of significantly expressed genes (multiple-testing adjusted p-value < 0.05, fold change > 2) between each non-UIP subtype and UIP samples (N = 212). The number of differentially expressed genes overlapping with those between UIP and non-UIP samples was summarized in the third columns

From: Identification of usual interstitial pneumonia pattern using RNA-Seq and machine learning: challenges and solutions

  Up-regulated genes Down-regulated genes Total number of differentially expressed genes # genes overlapping with those from all non-UIP samples
All non-UIP (N = 147) 55 96 151 151 (100%)
Bronchiolitis (N = 10) 41 34 75 6 (8%)
Hypersensitivity pneumonitis
(HP) (N = 13)
32 53 85 14 (16%)
Nonspecific interstitial
pneumonia (NSIP) (N = 12)
37 49 86 13 (15%)
Organizing pneumonia
(OP) (N = 23)
1 15 16 31 (52%)
Respiratory bronchiolitis (RB)
(N = 16)
549 152 701 64 (9%)
Sarcoidosis (N = 11) 448 726 1174 93 (8%)