Table 3 of Rozsa, Mol Vis 2006; 12:125-141.


Table 3. 111 Differential dexamethasone-induced gene expression in trabecular meshwork, sorted by functional categories

The table lists the GenBank accession number, gene name, fold change within each individual TM cell line and the average of all three cell lines for 111 genes with three fold or greater change in expression determined by microarray analysis. Fold change is relative to untreated cells. Genes are sorted according to functional category.

                                                                            HTM A   HTM B   HTM C   Mean
   GenBank                        Gene title (Symbol)                       fold    fold    fold    fold
  ---------   -----------------------------------------------------------   -----   -----   -----   -----

Adhesion
  NM_004791   integrin, β-like 1 (IGBL1)                                      8.4     4.4     7.5     6.4
  M35999      integrin, β3 (ITGB3)                                            4.7     3.2     4.4     3.9
  BC003610    milk fat globule-EGF factor 8 protein (MFGE8)                   2.8     2.2     5.7     3.3
  AW188198    tumor necrosis factor, α-induced protein 6 (TNFAIP6)           -5.1    -6.8    -1.9    -3.8

Cytokine
  NM_000600   interleukin 6 (IL6)                                            -4.1    -3.1    -4.1    -3.7
  NM_002309   leukemia inhibitory factor (LIF)                               -7.6    -5.8    -7.1    -6.8

Cytoskeleton
  NM_001615   actin, γ2, smooth muscle, enteric (ACTG2)                       2.9    19.2     4.2     9.4
  AV712733    filamin B, β (FLNB)                                             4.2     3.5     6.8     4.8
  NM_001613   actin, α2, smooth muscle, aorta (ACTA2)                         4.8     4.1     5.2     4.6
  AL157398    nebulette (NEBL)                                                3.3     4.9     7.2     4.4
  AL136139    neural precursor cell expressed, developmentally                4.7     3.0     6.2     4.3
              downregulated 9 (NEDD9)
  NM_003186   transgelin (TAGLN)                                              3.4     3.4     4.8     3.5

Enzyme
  NM_004117   FK506 binding protein 5 (FKBP5)                               104.4    19.3    12.4    19.9
  AA923354    monoamine oxidase A (MAOA)                                     17.1    13.3     9.6    13.1
  NM_002150   4-hydroxyphenylpyruvate dioxygenase (HPD)                      14.4     5.4    13.3    11.9
  NM_002862   phosphorylase, glycogen; brain (PYGB)                           8.9     5.4    21.0     6.9
  AB046692    aldehyde oxidase 1 (AOX1)                                       5.4     3.4     6.8     5.5
  NM_018063   helicase, lymphoid-specific (HELLS)                             6.3     3.8     1.3     4.0
  NM_021154   phosphoserine aminotransferase 1 (PSAT1)                        5.0     4.7     2.2     3.8
  NM_016341   phospholipase C, epsilon 1 (PLCE1)                              5.0     2.4     3.3     3.6
  NM_014863   B cell RAG associated protein (GALNAC4S-6ST)                    5.5     2.3     2.9     3.3
  AI479175    sulfatase 1 (SULF1)                                            -1.5    -6.1    -5.5    -3.0
  NM_018371   chondroitin β1,4 N-acetylgalactosaminyltransferase             -2.4    -4.0    -2.4    -3.2
              (ChGn)
  NM_000691   aldehyde dehydrogenase 3 family, member A1 (ALDH3A1)           -5.0    -5.9    -2.3    -3.3
  NM_005019   phosphodiesterase 1A, calmodulin-dependent (PDE1A)             -2.9    -5.8    -2.7    -3.8
  NM_000962   prostaglandin-endoperoxide synthase 1 (PTGS1)                  -4.1    -4.5    -3.8    -4.3
  AJ251847    chitinase 3-like 1 (CHI3L1)                                    -6.1    -7.2    -5.0    -6.1

Extracellular matrix
  AI806793    collagen, type VIII, α2 (COL8A2)                                6.9     2.0     5.3     4.2
  NM_002380   matrilin 2 (MATN2)                                             -3.0    -7.1    -2.8    -3.7
  NM_002345   lumican (LUM)                                                  -6.7    -6.2    -3.3    -4.8

Growth factor
  X07868      putative insulin-like growth factor II associated protein       9.5    13.1     5.2     7.8
              (IGF2)
  AA583044    bone morphogenetic protein 2 (BMP2)                            -3.8    -4.0    -3.3    -3.6
  X16323      hepatocyte growth factor (hepapoietin A; scatter factor)       -5.6    -3.5    -3.9    -4.2
              (HGF)
  M13436      inhibin, β A (INHBA)                                           -4.2    -5.3    -4.2    -4.8
  NM_002091   gastrin-releasing peptide (GRP)                                -7.2    -7.5    -7.4    -6.8
  AF003934    growth differentiation factor 15 (GDF15)                       -6.3   -10.5    -6.9    -7.3
  NM_000266   Norrie disease (NDP)                                          -13.0    -4.5    -5.8    -7.7
  AI972496    insulin-like growth factor 1 (IGF1)                           -12.3   -16.9    -6.4   -13.1

Ion transport
  NM_000219   potassium voltage-gated channel, Isk-related family, member     8.1     2.3     2.0     4.2
              1 (KCNE1)
  AA551075    potassium channel tetramerization domain containing 12          3.0     3.9     2.9     3.3
              (KCTD12)
  NM_002246   potassium channel, subfamily K, member 3 (KCNK3)               -2.3    -5.2    -3.3    -3.0
  NM_024505   NADPH oxidase, EF-hand calcium binding domain 5 (NOX5)         -2.7    -3.0    -3.4    -3.0
  NM_000812   gamma-aminobutyric acid (GABA) A receptor, β1 (GABRB1)         -3.3    -2.6    -3.8    -3.2
  AB040120    solute carrier family 39 (zinc transporter), member 8          -7.8    -2.0    -4.4    -4.3
              (SLC39A8)
  NM_000096   ceruloplasmin (CP)                                             -4.0    -4.8    -3.7    -4.3
  U73191      potassium inwardly rectifying channel, subfamily J, member     -7.9    -7.5   -10.9    -8.8
              15 (KCNJ15)

Kinase
  NM_004438   EPH receptor A4 (EPHA4)                                         3.9     7.6    12.2     6.4
  NM_022740   homeodomain interacting protein kinase 2 (HIPK2)                5.0     4.1     3.8     4.3
  NM_030751   SNF1-like kinase (SNF1LK)                                       5.3     2.7     3.9     3.9
  AI992251    ribosomal protein S6 kinase, 90 kDa, polypeptide 2              4.0     2.4     3.2     3.3
              (RPS6KA2)

Metallothionein
  R06655      metallothionein 1M (MT1M)                                      14.1     3.5    10.3     8.9
  NM_002450   metallothionein 1X (MT1X)                                       3.4     4.3     3.3     3.7

Peptidase
  NM_001710   B-factor, properdin (BF)                                       -3.9    -3.6    -2.4    -3.3
  NM_002421   matrix metalloproteinase 1 (MMP1)                              -4.9    -2.7   -14.1    -4.4
  NM_007038   a disintegrin-like and metalloprotease with thrombospondin     -2.7    -6.7    -3.4    -4.4
              type 1 motif, 5 (ADAMTS5)
  BC006393    carboxypeptidase Z (CPZ)                                       -2.7   -13.8    -3.7    -4.8
  NM_000439   proprotein convertase subtilisin/kexin type 1 (PCSK1)         -16.3    -8.3   -11.9   -11.7

Phosphatase
  AW009884    protein phosphatase 2 (formerly 2A), regulatory subunit A,     -2.4    -6.5    -5.1    -3.3
              β isoform (PPP2R1B)

Protease inhibitor
  NM_001085   serine (or cysteine) proteinase inhibitor, clade A, member     86.0    31.2    52.2    48.2
              3 (SERPINA3)
  NM_003064   secretory leukocyte protease inhibitor (SLPI)                  24.9     6.3    62.8    34.2
  NM_000062   serine (or cysteine) proteinase inhibitor, clade G, member      4.7     2.1     3.8     3.9
              1 (SERPING1)

Proteasome
  NM_018324   thioesterase domain containing 1 (THEDC1)                       3.1     4.0     2.6     3.2
  D42055      neural precursor cell expressed, developmentally                1.8     2.1     4.4     3.0
              down regulated 4 (NEDD4)

Receptor
  NM_001993   coagulation factor III (F3)                                    11.3    47.5    26.7    26.2
  NM_004633   interleukin 1 receptor, type II (IL1R2)                         9.0    58.1    26.9    22.9
  NM_014879   purinergic receptor P2Y, G-protein coupled, 14 (P2RY14)        12.4     4.8     6.4     7.5
  NM_002029   formyl peptide receptor 1 (FPR1)                                6.9     1.1     4.8     3.9
  AF064826    glypican 4 (GPC4)                                               4.7     2.4     4.8     3.7
  NM_000361   thrombomodulin (THBD)                                           3.7     3.7     1.6     3.0
  NM_030781   collectin subfamily member 12 (COLEC12)                        -2.2    -5.4    -2.3    -3.0
  AY029180    plasminogen activator, urokinase receptor (PLAUR)              -6.2    -2.0    -4.0    -3.5
  NM_002546   tumor necrosis factor receptor superfamily, member 11b        -12.6    -7.9    -4.0    -6.6
              (TNFRSF11B)
  NM_001338   Coxsackie virus and adenovirus receptor (CXADR)                -4.4    -8.9    -8.0    -7.2

Transcription
  NM_006006   zinc finger and BTB domain containing 16 (ZBTB16)              13.5    14.8    12.3    13.6
  AL110191    TSC22 domain family, member 3 (TSC22D3)                         6.9     6.2     6.9     6.8
  NM_002616   period homolog 1 (PER1)                                         3.8     3.2     3.2     3.4
  NM_015559   SET binding protein 1 (SETBP1)                                  3.0     2.5     4.8     3.3
  NM_004143   Cbp/p300-interacting transactivator, with Glu/Asp-rich         -1.1    -5.6    -4.6    -3.3
              carboxy-terminal domain, 1 (CITED1)
  BF514079    Kruppel-like factor 4 (gut, KLF4)                              -2.9    -2.4    -5.0    -3.3
  NM_016831   period homolog 3 (PER3)                                        -2.8    -4.9    -4.4    -3.8
  U12767      nuclear receptor subfamily 4, group A, member 3 (NR4A3)        -5.3   -11.5    -1.9    -3.8
  AI360875    SRY (sex determining region Y)-box 11 (SOX11)                  -2.2    -2.6    -7.2    -3.9

Transport
  M10906      serum amyloid A1 (SAA1)                                       333.4    37.4   252.9   218.7
  NM_030754   serum amyloid A2 (SAA2)                                       180.2    17.9   145.6   114.0
  NM_000275   oculocutaneous albinism II (OCA2)                               7.3     2.1     7.6     5.5
  NM_001647   apolipoprotein D (APOD)                                        14.8     4.0    10.6     5.3
  BF447105    sortilin 1 (SORT1)                                              3.0     2.0     4.1     3.0
  NM_001878   cellular retinoic acid binding protein 2 (CRABP2)              -2.1    -4.3    -2.3    -3.1
  NM_003469   secretogranin II (SCG2)                                        -3.7    -2.9    -4.8    -3.7

Other
  NM_021146   angiopoietin-like 7 (ANGPTL7)                                 271.9    65.0   116.4   187.0
  D88214      myocilin, trabecular meshwork-inducible glucocorticoid         64.8     7.7    54.8    16.7
              response (MYOC)
  NM_014059   response gene to complement 32 (RGC32)                         64.6    22.4     8.2    12.3
  AL136861    cysteine-rich secretory protein LCCL domain containing 2       20.9     5.5     7.5    10.6
              (CRISPLD2)
  NM_015385   sorbin and SH3 domain containing 1 (SORBS1)                    11.9     2.5     7.7     6.3
  AL050264    TU3A protein (TU3A)                                             4.7     2.5     6.9     4.4
  NM_016109   angiopoietin-like 4 (ANGPTL4)                                   2.3     8.0     2.9     4.1
  NM_002923   regulator of G-protein signaling 2, 24 kDa (RGS2)               2.5     2.7     4.4     3.1
  AA243659    Family with sequence similarity 49, member A (FAM49A)           2.7     4.1     2.7     3.1
  AB020690    paraneoplastic antigen MA2 (PNMA2)                              3.0     2.2     3.2     3.1
  NM_006444   SMC2 structural maintenance of chromosomes 2-like 1 (yeast)    -3.0    -2.7    -3.3    -3.1
              (SMC2L1)
  BC005961    parathyroid hormone-like hormone (PTHLH)                       -1.5   -14.0    -3.5    -3.3
  NM_024780   transmembrane channel-like 5 (TMC5)                            -3.2    -1.7    -5.7    -3.5
  NM_015564   leucine rich repeat transmembrane neuronal 2 (LRRTM2)          -3.3    -2.8    -5.8    -3.6
  AF338650    PDZ domain containing 3 (PDZK3)                                -6.3    -2.6    -5.4    -4.0
  NM_005101   interferon, alpha-inducible protein (clone IFI-15K, G1P2)      -7.0    -2.6    -1.8    -4.0
  NM_003810   tumor necrosis factor (ligand) superfamily, member 10          -2.7    -7.1    -3.9    -4.4
              (TNFSF10)
  AI074333    angiopoietin-like 2 (ANGPTL2)                                  -3.7    -8.6    -2.8    -4.4
  NM_005863   neuroepithelial cell transforming gene 1 (NET1)                -3.0    -7.0    -3.0    -4.4
  NM_014890   downregulated in ovarian cancer 1 (DOC1)                       -7.3    -5.8    -4.6    -5.9
  NM_013409   follistatin (FST)                                             -13.5    -7.1    -6.9    -8.7
  AB024518    chromosome 9 open reading frame 26 (C9orf26)                   -3.2   -12.7   -33.7   -17.1

Rozsa, Mol Vis 2006; 12:125-141 <http://www.molvis.org/molvis/v12/a14/>
©2006 Molecular Vision <http://www.molvis.org/molvis/>
ISSN 1090-0535