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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.