For example, if one only uses random English word pairs as a False relation, then the system may incorrectly say all co-occurring genes are true relations due to random gene gene pairs existing with an easily recognizable genetic context that differs from random English words.
For the random False candidate relations, we selected eight percent of candidate relations that were not annotated in BioGRID or ChEA and did not contain potential interaction evidence as negative examples.
The analysis of 17 false negative relations which are in the database but not found by our approach shows that most of the relations could be found only in full text and that the automatic system misses four miRNA-Alzheimer's disease relations from abstracts.
For Mackie, any logic dealing with false propositions, relations of contradiction and contrariety, entertained arguments, falsifications and reductions ad absurdum must be something more than an account of propositions as what is there (Mackie 1985).
The PMN, however, chooses fewer false regulatory relations than the MN, resulting in a higher precision (Fig. 3b).
To address these constraints and facilitate further investigations, we have put emphasis on the reduction of possible false positive relations.
First, we need to lower the scores of false positive relations which are generated by too broad entities (frequent but not very interesting).
There may exist the false positive relations for the text-mining of PubMed, because the co-occurrence of the two terms donot mean the gene is indeed related with T2D or insulin.
In such a case, one might prefer a high-precision PPI extraction tool to its high-recall counterpart because potential false positive relations introduced by the high-recall tool will significantly degrade the accuracy and reliability of inferred knowledge from the combined database.
In contrast, we defined a False candidate relation as a gene gene candidate relation that was either annotated in the Negatome 2.0 database (Blohm et al., 2014) or was randomly selected with no interaction evidence.
