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Table 4 Biological relationships used in guilt-by-association GO term predictions

From: Combining guilt-by-association and guilt-by-profiling to predict Saccharomyces cerevisiaegene function

Relationship evidence type No. of gene pairs with evidence Sourcea
Affinity capture-MS 19,115 Gavin et al. [56]
Two-hybrid 9,598 Ito et al. [4]
Synthetic lethality 9,067 Tong et al. [57]
Synthetic growth defect 5,131 Pan et al. [58]
Biochemical activity 4,822 Ptacek et al. [59]
Affinity capture-western 3,584 Kang et al. [60]
Epistatic miniarray profile 3,416 Schuldiner et al. [61]
Dosage rescue 2,493 Gandhi et al. [62]
Synthetic rescue 1,667 Valachovic et al. [63]
Phenotypic enhancement 1,468 Myung et al. [64]
Reconstituted complex 1,345 Kus et al. [65]
Co-purification 898 Stevens et al. [66]
Phenotypic suppression 589 Mosch et al. [67]
Dosage lethality 373 Branzei et al. [68]
Co-fractionation 319 Xu et al. [69]
Co-localization 208 Shen et al. [70]
Co-crystal structure 72 Cramer et al. [71]
Protein-peptide 63 Mariño-Ramirez et al. [72]
Affinity capture-RNA 52 Tharun et al. [73]
Far western 36 Tsai et al. [74]
Dosage growth defect 33 Pan et al. [75]
FRET 32 Damelin et al. [76]
Protein-RNA 6 Gonsalvez et al. [77]
Total 55,039  
  1. aFor each evidence type, a representative reference (the one contributing the most interactions) is shown. GO, Gene Ontology.