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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.