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Table 2 Selection of genes regulated by NGF withdrawal identified in this study

From: Global analysis of gene expression in NGF-deprived sympathetic neurons identifies molecular pathways associated with cell death

GO pathway Gene symbol Gene name -NGF
v
+NGF
CEP
v
+NGF
AP1/ATF family CREM cAMP responsive element modulator 1.51 1.25
  JunD Jun D proto-onocogene 1.74 1.60
Cell death Bmf Bcl2 modifying factor 1.91 1.31
  Casp12 caspase 12 1.46 1.23
  Casp3 caspase 3, apoptosis related cysteine protease 1.73 1.31
  Casp4 caspase 4, apoptosis related cysteine protease 1.60 1.03
  Cycs cytochrome c, somatic -1.88 -1.19
DNA damage-inducible GADD45α Growth arrest and DNA damage-inducible 45 alpha 1.45 1.41
ER stress ATF3 activating transcription factor 3 2.89 -1.69
  Ddit3 DNA damage-inducible transcript 3/CHOP10 4.11 1.37
  Eif2ak3 eukaryotic translation initiation factor 2 alpha kinase 3/PERK 2.28 1.54
  Herpud1 homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1 2.17 1.17
  Myd116 myeloid differentiation primary response gene 116 1.81 1.09
Fatty acid/cholesterol metabolism Hmgcr 3-hydroxy-3-methylglutaryl-coenzyme A reductase -2.79 -1.76
  Insig1 insulin induced gene 1 -4.69 -1.51
  Sc4mol sterol-C4-methyl oxidase-like -3.95 -1.36
FOXO target Txnip thioredoxin interacting protein/Vdup1 3.68 2.46
MAPK pathways Dusp6 dual specificity phosphatase 6/Mkp3 -6.68 -5.66
  RhoQ Ras homologue gene family, member Q 2.51 1.16
Miscellaneous Areg amphiregulin -5.90 -5.50
  Bhlhb2 basic helix-loop-helix domain containing, class B2 -2.35 -2.36
  Btg1 B-cell translocation gene 1, anti-proliferative 1.78 1.44
  Btg2 B-cell translocation gene 2, anti-proliferative 3.63 1.64
  Chrna7 cholinergic receptor, nicotinic, alpha polypeptide 7 2.16 2.16
  Cnskr3 Cnksr family member 3 (Magi1) 3.14 1.54
  Pkib protein kinase (cAMP-dependent, catalytic) inhibitor beta 2.39 1.02
  Tpo1 developmentally regulated protein TPO1 2.41 2.04
Myc network Id2 Inhibitor of DNA binding 2 -1.75 -1.31
  Mxi1 Max interacting protein 1 2.22 1.77
  Mycn v-myc myelocytomatosis viral related oncogene, neuroblastoma derived -2.89 -1.87
  Ndrg1 N-myc downstream regulated gene 1 3.18 2.07
  Ptma prothymosin alpha -1.93 -1.37
PI3K-Akt PIK3IP1 similar to HGFL protein 5.28 4.56
pathway PIK3r1 phosphatidylinositol 3-kinase, regulatory subunit, polypeptide 1/p85 1.85 1.90
  1. The fold increase in RNA level after NGF withdrawal or after NGF withdrawal in the presence of CEP-11004 (average of 3 independent experiments) is shown for a selection of genes that have been grouped according to functional activity. The level of gene expression in the presence of NGF was set to 1. Negative fold changes refer to down-regulation. Only genes with a FDR-adjusted p-value of < 0.01 are shown.