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Table 2 Stringent GeneSpring analysis of gene regulation in normal vs. tumor cells in response to 18 hr arginine deprivation.

From: Short-term arginine deprivation results in large-scale modulation of hepatic gene expression in both normal and tumor cells: microarray bioinformatic analysis

Class (n)

Example

Change in Normal

Change in Tumor

Cell Growth and

Maintenance (10)

growth arrest and DNA-damage-inducible 45 alpha

Rattus norvegicus transcribed sequence with moderate similarity to protein

sp:Q9H3K2 (H.sapiens) DER2_HUMAN Dermal papilla derived protein 2

(AA858928)

neuronal cell death inducible putative kinase (NIPK)

Caspase 12

tumor-associated protein 1

solute carrier family 7, member 1

solute carrier family 3, member 2

homocysteine-inducible, endoplasmic reticulum stress-inducible

ubiquitin-like domain member 1

asparagine synthetase

CTL target antigen

Inc

Inc

Unclassified (1)

Low density lipoprotein receptor

Dec

Dec

Cell Growth and

Maintenance (28)

retinoblastoma-like 2

epithelial calcium channel 1

sequestosome 1

70 kda heat shock protein precursor

protein arginine N-methyltransferase 3(hnRNP methyltransferase S. cerevisiae)-like 3

eukaryotic translation initiation factor 4E binding protein 1

protease, serine, 15

B-cell translocation gene 1

5-hydroxytryptamine (serotonin) receptor 3a

MAP-kinase phosphatase (cpg21)

diphtheria toxin receptor

NC

Inc

Unclassified (24)

growth arrest specific 5

  

Cell Growth and

Maintenance (12)

cyclin dependent kinase inhibitor 2C

solute carrier family 6, member 6

fatty acid Coenzyme A ligase, long chain 3

Inhibitor of DNA binding 3, dominant negative helix-loop-helix protein

Topoisomerase (DNA) 2 alpha

adducin 3, gamma

NC

Dec

Signal Transduction (2)

RAB3D, member RAS oncogene family

  

Developmental Processes (1)

Sperm-associated antigen 5

arginine vasopressin receptor 1A

GATA binding protein 6

  

Unclassified (21)

Nesprin-1

  

Cell Growth and Maintenance (1)

endo-alpha-mannosidase

Inc

NC

Signal Transduction (2)

Inhibitor of DNA binding 2, dominant negative helix-loop-helix protein

Rattus norvegicus transcribed sequence with strong similarity to protein pir:I55595

(H. sapiens) I55595 splicing factor (BG372903)

  

Unclassified (7)

transmembrane 4 superfamily member 3 (NM_133526)

  

Cell Growth and Maintenance (6)

cytochrome P450, subfamily 51

7-dehydrocholesterol reductase

isopentenyl-diphosphate delta isomerase

sterol-C4-methyl oxidase-like]

farensyl diphosphate synthase

Growth Response protein CL-6 (Insig-1)

Dec

NC

  1. 'Change' defined as 2 fold and higher increase (+) or decrease (-) in expression from + arg to - arg. 'NC' (No change) defined as all other genes that were not differentially expressed with a 2 fold and higher change. Main functional classes are shown in the table, with corresponding representative genes in each class. Categorization of genes was performed using GeneSpring software. The number of genes in each class is also shown beside the class in parentheses.