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Table 3 Arginine sensitivity of rat hepatic cells for known stress response-linked genes.

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

A. Normal Hepatic Cells
Annotation Gene name Affymetrix ID Change P value
Metabolism (Cholesterol biosynthesis) farensyl diphosphate synthase 1370808_at 0.00002
  farnesyl diphosphate farnesyl transferase 1 1387119_at 0.00011
  3-hydroxy-3-methylglutaryl-Coenzyme A synthase 1 1373243_at 0.00002
  cytochrome P450, subfamily 51 1368232_at 0.00002
  mevalonate pyrophosphate decarboxylase 1375852_at 0.00043
  7-dehydrocholesterol reductase 1386990_at 0.00013
  mevalonate kinase 1388218_at 0.00002
  isopentenyl-diphosphate delta isomerase 1367839_at 0.00002
  diaphorase 1 1372012_at 0.00077
  Sterol 14 alpha-demethylase (CYP51) 1387020_at 0.00002
  3-hydroxy-3-methylglutaryl-Coenzyme A reductase 1367932_at 0.00002
  phenylalkylamine Ca2+ antagonist (emopamil) binding protein 1367667_at 0.00021
  cytochrome P450, subfamily 51 1368189_at 0.00002
  mevalonate kinase 1368878_at 0.00120
  low density lipoprotein receptor 1388872_at 0.00021
  isopentenyl-diphosphate delta isomerase 1368020_at 0.00002
Metabolism and energy pathways ATP citrate lyase 1367854_at 0.00002
Metabolism (Urea Cycle) arginase 1 1368266_at 0.000492
  glutamate dehydrogenase 1 1370200_at 0.00002
  heterogeneous nuclear ribonucleoprotein A/B 1367754_s_at 0.001651
  ornithine aminotransferase 1367729_at 0.002753
  argininosuccinate lyase 1368916_at 0.015426
Growth arrest and DNA damage inducible gene Gadd45g-predicted 1388792_at 0.00024
  Gadd45b-predicted 1372016_at 0.00778
  Gadd45gip_1predicted 1371896_at 0.00077
Stress Response growth response protein (CL-6) 1367894_at 0.00002
  voltage-dependent anion channel 1 1386909_a_at 0.00107
Apoptosis ankyrin-like repeat protein 1367664_at 0.00005
B. Hepatic Tumor Cells
Annotation Gene name Affymetrix ID Change P value
Metabolism (Cholesterol biosynthesis) farnesyl diphosphate farnesyl transferase 1 1367839_at 0.00110
  3-hydroxy-3-methylglutaryl-Coenzyme A synthase 1 1367932_at 0.00002
  cytochrome P450, subfamily 51 1367979_s_at 0.00014
  7-dehydrocholesterol reductase 1368189_at 0.00043
  isopentenyl-diphosphate delta isomerase 1368878_at 0.00004
  protein kinase, AMP-activated, alpha 1 catalytic subunit 1369104_at 0.05055
  diaphorase 1 1370808_at 0.00304
  Dhcr24-predicted 1372012_at 0.01202
  phenylalkylamine Ca2+ antagonist (emopamil) binding protein 1386990_at 0.00165
  cytochrome P450, subfamily 51 1387020_at 0.00650
  low density lipoprotein receptor 1388218_at 0.00002
  mevalonate pyrophosphate decarboxylase 1368020_at 0.03578
Metabolism and energy pathways ATP citrate lyase 1367854_at 0.00002
Metabolism (Urea Cycle) glutamate dehydrogenase 1 1370200_at 0.00359
  glutamate dehydrogenase 1 1387878_at 0.00021
  ornithine aminotransferase 1367729_at 0.00002
  arginase 1 1368266_at 0.00061
Growth arrest & DNA damage inducible gene Gadd45g-predicted 1388792_at 0.00249
  Gadd45gip_1predicted 1371896_at 0.00133
Stress Response oxygen regulated protein (150 kD) 1370665_at 0.00141
  solute carrier family 2, (facilitated glucose transporter) member 8 1368286_at 0.00049
  growth response protein (CL-6) 1367894_at 0.00004
  insulin induced gene 2 1389377_at 0.02475
  protease, serine, 25 1367478_at 0.00004
Apoptosis ankyrin-like repeat protein 1367664_at 0.01202
  glycogen synthase kinase 3 beta 1370267_at 0.00249
  valosin-containing protein 1367455_at 0.03841
  1. Genes were selected based on key word categories/annotations shown and search of Affymetrix rat gene chip probes. Not all genes associated with stress response in human cells are included or identifiable in the rat gene chip. Genes scoring as absent in all 6 normal or tumor samples were eliminated from further analysis. For genes scoring as present, the average value of (+) arginine and (-) arginine was calculated for three replicate samples. Direction of change in expression upon arginine deprivation and the associated p value for such change is presented.