Table 2 Example semantic features (SGD8 dataset). Top 10 terms in the k = 8 semantic features obtained for a NMF experiment (ordered by decreasing importance). Labels show topical interpretations provided by experts (including more concrete topics in parenthesis)
From: Discovering semantic features in the literature: a foundation for building functional associations
F1 DNA metabolism (DNA replication) | F2 DNA metabolism (DNA repair) | F3 Metabolism/Stress/Degradation | F4 Transciption (chromatin) | F5 Cell Division (mitosis) | F6 Miochondria | F7 Transport (vesicular trafficking) | F8 Protein synthesis |
|---|---|---|---|---|---|---|---|
replic | repair | glucos | actin | spindl | mitochondri | transport | translat |
pcna | telomer | fatti | swi | cyclin | preprotein | vesicl | mrna |
dna | dsb | heat | nucleosom | kinetochor | mitochondria | vacuolar | trna |
ner | recombin | stress | snf | hsp90 | inner | vacuol | alpha |
damag | mismatch | endoplasm | histon | chaperon | transloc | membran | gcn4 |
checkpoint | dna | reticulum | chromatin | scf | outer | nitrogen | beta |
rfc | rad52 | proteasom | elong | anaphas | membran | secretori | gtp |
pol | excis | phosphatas | mate | mitosi | matrix | autophagi | phosphoryl |
polymeras | rad51 | atpas | silenc | centromer | oxid | cytoplasm | exchang |
rad6 | endonucleas | sphingolipid | polar | mitot | translocas | sort | kinas |