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Table 3 Gene Ontology categories and KEGG metabolic pathways that have been found significantly enriched in more than 2 expression studies on RMS by the meta-analysis.

From: Defining the gene expression signature of rhabdomyosarcoma by meta-analysis

Gene Ontology

Class description§

W$

B

DP

K

SA

SF

# studies

Biological Process

Cell killing

 

x

x

x

x

x

5

 

Muscle contraction

x

x

x

 

x

x

5

 

Biosynthesis

x

  

x

x

x

4

 

Appendage morphogenesis

x

 

x

 

x

x

4

 

Macromolecule metabolism

x

x

  

x

x

4

 

Myoblast differentiation

 

x

 

x

x

x

4

 

Endothelial cell differentiation

x

  

x

x

x

4

 

Regulation of organismal physiological process

 

x

x

 

x

x

4

Molecular Functions

↓ Oxidoreductase activity, acting on the CH-NH group of donors

x

x

x

x

x

x

6

 

↓ AMP deaminase activity

 

x

x

x

x

x

5

 

Thioredoxin-disulfide reductase activity

x

x

 

x

x

x

5

 

Cytoskeletal protein binding

x

x

x

 

x

x

5

 

Primary active transporter activity

x

x

x

 

x

x

5

 

↑ Phospholipid-hydroperoxide glutathione peroxidase activity

x

x

 

x

x

x

5

 

RNA binding

x

 

x

 

x

x

4

 

4-alpha-glucanotransferase activity

 

x

 

x

x

x

4

 

Amylo-alpha-1,6-glucosidase activity

 

x

 

x

x

x

4

 

↑ Glutathione peroxidase activity

 

x

 

x

x

x

4

 

Protein C-terminus binding

 

x

x

 

x

x

4

 

Ornithine decarboxylase inhibitor activity

 

x

 

x

x

x

4

 

Heme-copper terminal oxidase activity

x

x

  

x

x

4

 

↓ Oxidoreductase activity, acting on NADH or NADPH

x

x

  

x

x

4

 

↓ Oxidoreductase activity, acting on sulfur group of donors

 

x

 

x

x

x

4

 

↓ Oxidoreductase activity, acting on heme group of donors

x

x

  

x

x

4

 

Hydrolase activity, acting on ether bonds

 

x

x

 

x

x

4

 

Intramolecular oxidoreductase activity

x

x

  

x

x

4

 

↑ Phosphatase activator activity

 

x

x

 

x

x

4

 

↓ Electron transporter, transferring electrons from coqh2-cytochrome c reductase complex and cytochrome c oxidase complex activity

x

x

 

x

 

x

4

Cellular Component

↓ Proton-transporting ATP synthase complex (sensu Eukaryota)

x

 

x

x

x

 

4

 

↓ Proton-transporting ATP synthase complex, catalytic core F(1) (sensu Eukaryota)

x

 

x

 

x

x

4

 

↓ Transcription factor TFIIH complex

  

x

x

x

x

4

 

Cytoplasm

x

x

  

x

x

4

 

↓ Proton-transporting ATP synthase, catalytic core (sensu Eukaryota)

x

 

x

x

x

 

4

 

Cytosolic small ribosomal subunit (sensu Eukaryota)

x

  

x

x

x

4

 

Cytoskeleton

 

x

x

 

x

x

4

 

Isoamylase complex

 

x

 

x

x

x

4

 

↓ Proton-transporting ATP synthase complex

x

 

x

 

x

x

4

 

↓ Proton-transporting ATP synthase complex, catalytic core F(1)

x

 

x

x

x

 

4

 

↓ Proton-transporting ATP synthase, catalytic core

x

 

x

x

x

 

4

 

↓ Respiratory chain complex III

x

x

  

x

x

4

Metabolic Pathways

Energy Metabolism

 

↓ Reductive carboxylate cycle (CO2 fixation)

x

x

x

x

x

x

6

 

↓ Oxidative phosphorylation

x

x

x

 

x

 

4

 

↓ ATP synthesis

x

 

x

 

x

 

3

 

↓ Carbon fixation

 

x

  

x

 

2

 

Carbohydrate Metabolism

 

Glyoxylate and dicarboxylate metabolism

x

x

x

 

x

 

4

 

↓ Inositol metabolism

x

x

  

x

x

4

 

Glycolysis/Gluconeogenesis

 

x

  

x

 

2

 

↓ Pentose phosphate pathway

 

x

  

x

 

2

 

Biosynthesis and secondary metabolism

 

Streptomycin biosynthesis

 

x

 

x

x

 

3

 

Alkaloid biosynthesis I and II

x

x

x

x

x

x

6

 

Other

 

Ribosome

x

 

x

 

x

x

4

 

Apoptosis

 

x

 

x

 

x

3

 

Chondroitin/Heparan sulfate biosynthesis

x

 

x

x

  

3

 

D-Arginine and D-ornithine metabolism

x

  

x

x

 

3

 

Prion disease

x

 

x

x

  

3

 

Protein export

  

x

 

x

x

3

  1. $ W, B, K, DP, SA and SF stand respectively for Wachtel, Baer, Khan, De Pittà, Schaaf Adult and Schaaf Foetal datasets. Cells with an x represent enriched classes in the correspondent dataset.
  2. § The presence of arrows (↑ up or ↓ down regulation) in the category name indicates the expression levels of genes belonging to the class.
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