Table 1 Similar biological processes according to the literature. Top 10 biological process pairs most similar according to the literature while dissimilar (similar less than average) according to the ontology. Slit (literature-based similarity); Scd (Czekanowski-Dice similarity); Slin (Lin similarity); CG (number of genes co-annotated). Total number of genes annotated with each biological process term is shown in brackets.
From: A literature-based similarity metric for biological processes
Slit | Scd | Slin | CG | Biological Process A | Biological Process B |
|---|---|---|---|---|---|
0.94 | 0.37 | 0.04 | 0 | high affinity iron ion transport (5) | iron ion homeostasis (29) |
0.94 | 0.23 | 0.03 | 7 | phosphoinositide dephosphorylation (7) | inositol lipid-mediated signalling (13) |
0.91 | 0.37 | 0.03 | 0 | copper ion import (5) | copper ion homeostasis (7) |
0.82 | 0.29 | 0.04 | 13 | Rho protein signal transduction (17) | establishment of cell polarity (sensu Fungi) (104) |
0.77 | 0.36 | 0.04 | 1 | DNA replication checkpoint (5) | DNA strand elongation (30) |
0.76 | 0.40 | 0.00 | 1 | mitochondrial signaling pathway (6) | protein localization (287) |
0.75 | 0.21 | 0.04 | 0 | cell wall chitin biosynthesis (7) | cell budding (81) |
0.75 | 0.32 | 0.03 | 1 | intracellular copper ion transport (6) | cytochrome c oxidase complex assembly (9) |
0.73 | 0.32 | 0.03 | 0 | intracellular copper ion transport (6) | copper ion homeostasis (7) |
0.72 | 0.36 | 0.04 | 1 | DNA replication checkpoint (5) | DNA replication initiation (25) |