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)

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


Chagoyen et al. BMC Bioinformatics 2006 7:41   doi:10.1186/1471-2105-7-41

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