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Table 1 List of GO biological process terms in each cluster after overlap the results from all datasets.

From: Codon usage variability determines the correlation between proteome and transcriptome fold changes

Cluster 1

translation

biosynthetic process

cellular biosynthetic process

cellular protein metabolic process

protein metabolic process

Cluster 2

Transport

establishment of localization

localization

transmembrane transport

glutamine family amino acid catabolic process

Cluster 3

amine transport

establishment of localization

amino acid transport

transmembrane transport

carboxylic acid transport

Cluster 4

GPI anchor biosynthetic process

GPI anchor metabolic process

phosphoinositide biosynthetic process

lipoprotein metabolic process

lipoprotein biosynthetic process

Cluster 6

small molecule metabolic process

small molecule biosynthetic process

carboxylic acid metabolic process

oxoacid metabolic process

organic acid metabolic process

Cluster 7

small molecule metabolic process

small molecule biosynthetic process

cellular nitrogen compound biosynthetic process

fatty acid catabolic process

organic acid catabolic process

Cluster 8

telomere maintenance via recombination

    

Cluster 10

telomere maintenance via recombination

    

Cluster 11

small molecule metabolic process

small molecule biosynthetic process

heterocycle metabolic process

cellular nitrogen compound biosynthetic process

cellular ketone metabolic process

Cluster 12

endocytosis

    

Cluster 13

transposition, RNA-mediated

transposition

cellular process

loss of chromatin silencing

cofactor biosynthetic process

Cluster 14

transposition, RNA-mediated

transposition

regulation of biological process

regulation of cellular process

protein amino acid phosphorylation

Cluster 16

ribosome biogenesis

ribonucleoprotein complex biogenesis

rRNA metabolic process

rRNA processing

ncRNA processing

Cluster 17

cellular component biogenesis

nucleic acid metabolic process

macromolecular complex subunit organization

ribonucleoprotein complex biogenesis

RNA metabolic process

Cluster 18

nucleic acid metabolic process

cellular response to stress

cellular component organization

nucleobase, nucleoside, nucleotide and nucleic acid metabolic process

response to DNA damage stimulus

Cluster 19

cell cycle

cell cycle process

nucleic acid metabolic process

cellular component organization

cell cycle phase

Cluster 20

regulation of biological process

biological regulation

M phase

regulation of cellular process

cell cycle phase

  1. *the genes in clusters 5, 9 and 15 were annotated to the GO term "biological process unknown"