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Table 1 Top 70 known genes altered by TSA in MC3T3-E1 cells

From: Gene profile analysis of osteoblast genes differentially regulated by histone deacetylase inhibitors

Gene Fold Change Welch Test
Induced   
   Ubiquitin carboxy-terminal hydrolase L1 12.66 6.79E-06
   Clusterin 12.58 1.80E-05
   A kinase (PRKA) anchor protein (gravin) 12 9.431 1.06E-07
   Abhydrolase domain containing 3 9.089 1.36E-05
   Protease, serine, 35 9.058 3.48E-06
   Glutathione S-transferase, alpha 4 8.408 3.35E-08
   Amphiregulin 7.100 2.57E-06
   Rab40b, member RAS oncogene family 6.904 1.16E-06
   Thioredoxin interacting protein 6.865 1.61E-06
   Apolipoprotein L, 2 6.604 0.001083
   Laminin, alpha 1 5.616 1.70E-04
   Solute carrier family 9, isoform 3 regulator 1 5.565 2.32E-05
   Growth arrest and DNA-damage-inducible 45 alpha 5.422 3.67E-06
   Insulin-like 6 5.418 6.71E-05
   Thrombospondin 1 5.374 1.07E-04
   Aldehyde dehydrogenase family 1, subfamily A7 5.359 4.73E-04
   Erythrocyte protein band 4.1-like 5 5.266 6.39E-04
   Hemoglobin alpha, adult chain 1 5.119 2.93E-06
   Glutaminyl-peptide cyclotransferase (glutaminyl cyclase) 5.046 1.22E-05
Suppressed   
   SMC4 structural maintenance of chromosomes 4-like 1 -5.192 5.96E-04
   Kinesin family member 11 -5.266 1.07E-08
   Lysyl oxidase -5.284 1.66E-06
   Antigen identified by monoclonal antibody Ki 67 -5.293 3.76E-04
   Prostaglandin F receptor -5.296 6.12E-04
   Proteasome (prosome, macropain) subunit, beta type 10 -5.362 4.16E-04
   Ubiquitin-conjugating enzyme E2C -5.393 8.64E-06
   Cyclin B1, related sequence 1 -5.408 1.21E-05
   Cytoskeleton associated protein 2 -5.441 1.47E-07
   Polo-like kinase 4 -5.456 1.03E-08
   Chromodomain helicase DNA binding protein 3 -5.528 6.74E-04
   Hyaluronan mediated motility receptor (RHAMM) -5.547 5.41E-04
   Kinesin family member 23 -5.605 2.30E-06
   Epithelial membrane protein 3 -5.606 3.65E-05
   Proteasome 26S subunit, ATPase 3, interacting protein -5.623 5.01E-04
   Cell division cycle 2 homolog A (S. pombe) -5.693 1.43E-05
   Formyltetrahydrofolate synthetase domain containing 1 -5.725 1.96E-04
   Nucleolar and spindle associated protein 1 -5.780 1.81E-05
   Centromere autoantigen A -5.840 2.79E-04
   Fibroblast growth factor 7 -5.856 6.42E-06
   c-Fos induced growth factor -5.931 1.99E-04
   High mobility group box 2 -6.108 2.44E-08
   Similar to G2/mitotic-specific cyclin B1 -6.166 1.07E-05
   Cyclin A2 -6.311 3.35E-08
   Cell division cycle associated 2 -6.395 3.47E-05
   Calmodulin-like 4 -6.400 7.64E-04
   Heat shock protein, alpha-crystallin-related, B6 -6.401 1.69E-04
   Mannan-binding lectin serine protease 1 -6.413 3.19E-05
   UDP glycosyltransferase 1 family, polypeptide A6 -6.498 8.67E-04
   Calmodulin binding protein 1 -6.501 1.68E-08
   Aurora kinase B -6.531 1.74E-05
   PDZ binding kinase -6.548 3.16E-08
   Minichromosome maintenance deficient 5 -6.613 6.08E-08
   Interleukin 1 receptor-like 1 -6.641 6.40E-08
   RAD51 associated protein 1 -6.877 9.26E-05
   Centromere protein E -6.911 3.17E-04
   F-box only protein 5 -7.052 1.79E-07
   Serine/threonine kinase 6 -7.090 1.10E-07
   Stem cell growth factor -7.199 6.95E-05
   Proline 4-hydroxylase, alpha polypeptide III -7.383 3.66E-07
   Cell division cycle 20 homolog -7.469 1.27E-04
   Asporin -7.618 6.15E-04
   Glutathione peroxidase 7 -8.216 1.26E-07
   Polo-like kinase 1 -8.301 9.95E-06
   Sushi-repeat-containing protein -8.701 5.38E-08
   Ribonucleotide reductase M2 -9.796 2.00E-04
   Chromosome condensation 1-like -9.845 6.69E-04
   Histone 1, H2ad -10.21 4.61E-06
   Procollagen, type III, alpha 1 -10.44 6.38E-04
   Matrix metalloproteinase 13 -11.09 3.70E-05
   Thymidine kinase 1 -16.96 2.88E-05
  1. All genes were present at a FDR of 0.01 (99% confidence) relative to the vehicle control, DMSO. The list excludes ESTs and other non-annotated sequences.