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Table 3 Baseline methods in term-centric evaluation of protein function prediction

From: The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

  Model number Training data Score assignment
Expression 1 Gene expression compendium for P. aeruginosa PAO1 Highest correlation score out of all pairwise correlations
  2   Top 10 average correlation score
BLAST 1 All experimental annotation in UniProt-GOA. Sequences from Swiss-Prot Highest sequence identity out of all pairwise BLASTp hits
  2 All experimental annotation in UniProt-GOA. Sequences from Swiss-Prot and TrEMBL  
blastcomp 1 All experimental and computational annotations in UniProt-GOA. Sequences from Swiss-Prot  
  2 All experimental and computational annotations in UniProt-GOA. Sequences from Swiss-Prot and TrEMBL  
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Genome Biology

ISSN: 1474-760X

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