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Table 11 Gene rankings for each method, ordered by pathway number

From: Combining entity co-occurrence with specialized word embeddings to measure entity relation in Alzheimer’s disease

Extraction Ranking Numbers
 GeneProposedCo-occurrenceWord2VecCOALSRandom IndexingPathway
PKDE4J*TNF361742487654885157
*EGFR1468206355502391338143
*GSK3B990137423412119234939
*CREB16298824067926468746039
IL1B2401129234513043373337
*SRC3854823039844257525736
*ATF42890696542043430453832
MYC6531490949576688657832
*IGF144646334101940204030
IGF1R186813973697519111929
SemRepMAP 2 K13466346234331.51.280
PRKACB3952213134441.51.267
*MAPK8253100434101.51.259
*TNF731356424601.51.257
JUN2428180427991.51.249
*TP5339972424921.51.248
*IL6925101228161.51.243
EGFR3201303224971.51.243
*BAX2099364327801.51.241
IL1B2264191022461.51.237
  1. The genes with the asterisk (*) symbol indicate that our method generates better ranking than the other methods do