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Table 2 Cluster analysis versus GO analysis. Common up- and downregulated biological processes (GO) in the cluster analysis and the GO analysis. Processes significant in more than one time point of any cell line in the GO analysis and occurring in more than one cluster of any cell line.

From: Gene expression profiles in asbestos-exposed epithelial and mesothelial lung cell lines

GO biological process

Cluster analysis

GO analysis

 

A549 cluster number (uncorrected p-value)

Beas-2B cluster number (uncorrected p-value)

MeT5A cluster number (uncorrected p-value)

 

Antigen processing, endogenous antigen via MHC class I

5 (9.52 × 10-10)

12 (1.31 × 10-3)

 

A549 1 h up A549 24 h down

Apoptotic program

9 (2.58 × 10-3)

6 (3.00 × 10-3)

2 (2.55 × 10-4)

Beas-2B 24 h down A549 48 h down

Cytoskeletal anchoring

9 (2.04 × 10-3)

6 (2.44 × 10-3), 16 (1.38 × 10-3)

2 (2.85 × 10-3)

A549 24 h down MeT5A 48 h down

Nucleosome assembly

1 (5.68 × 10-4)

3 (2.52 × 10-3), 5 (4.02 × 10-3), 13 (1.13 × 10-3)

 

Beas-2B 1 h down MeT5A 1 h up

Regulation of DNA replication

5 (9.56 × 10-3)

11 (3.02 × 10-3)

 

A549 1 h up A549 6 h up Beas-2B 24 h down Beas-2B 48 h down

Regulation of translational initiation

1 (7.00 × 10-5)

 

2 (5.73 × 10-3)

A549 48 h down Beas-2B 6 h down Beas-2B 48 h down MeT5A 1 h up

Positive regulation of transcription, DNA-dependent

8 (1.59 × 10-3)

 

2 (3.73 × 10-3)

A549 48h down Beas-2B 6h down MeT5A 1h up MeT5A 48h down

Positive regulation of I-kappaB kinase/NF-kappaB cascade

1 (5.98 × 10-3), 4 (1.03 × 10-4)

1 (2.36 × 10-3), 16 (1.17 × 10-4)

2 (2.07 × 10-3)

A549 6h up A549 24h down A549 48h down Beas-2B 6h down Beas-2B 24h down Beas-2B 48h down MeT5A 1h up

Negative regulation of survival gene product activity

8 (9.92 × 10-3)

 

2 (4.06 × 10-4)

A549 6h up A549 24h down A549 48h down Beas-2B 1h down Beas-2B 24h down Beas-2B 48h down MeT5A 1h up MeT5A 48h down