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Protein-Protein Interactions (PPI) play a key role in determining the outcome of most cellular processes. Correctly identifying and characterizing protein interactions and the networks they comprise are critical for understanding the molecular mechanisms within the cell. Large-scale biological experimental methods can directly and systematically detect the set of interacting proteins within an organism. Unfortunately, the resulting datasets are often incomplete and exhibit high false positive and false negative rates. In addition to the direct experimental data, a number of large biological datasets also provide indirect evidence about protein-interaction relationships.
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