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Table 4 Over-represented families of paralogous genes based on the wFleaBase annotations. In total 3,978 families encompassed 24,102 genes (genes per family: median — 3, 5–95 % interval — 2–18)

From: Transcriptional profiling of predator-induced phenotypic plasticity in Daphnia pulex

Regulation Family Function Numbera GSNAP TopHat
UP Omcl36 Pupal cuticle protein 59 11 9
UP Omcl49 Pupal cuticle protein 47 6 7
UP Omcl195 Zinc-metalloproteinase 19 9 8
UP Omcl240 Globin 15 4 5
UP Omcl335 Vitellogenin/Superoxide dismutase 12 6 6
UP Omcl886 Cuticle protein 5 3 ns
UP Omcl2139 Unknown 2 2 2
UP Omcl3428 Cyclin a 2 2 ns
UP Omcl3680 Unknown 2 2 2
DN Omcl23 Neurexin/Complement C1q 82 5 5
DN Omcl277 Elongation of very long chain fatty acids protein 15 3 4
DN Omcl329 C-type lectin 12 6 5
DN Omcl1532 Unknown 3 2 3
DN Omcl1713 Unknown 3 2 ns
DN Omcl1963 Unknown 3 3 3
DN Omcl2758 Unknown 2 2 2
DN Omcl3591 Unknown 2 2 2
  1. ns — group not significantly over-represented
  2. aTotal number of genes in the respective family