Table 2 of
Tarnuzzer, Mol Vis 2005;
11:36-49.Table 2 of
Tarnuzzer, Mol Vis 2005;
11:36-49.
Table 2. ECM, protease, and cell adhesion related genes expressed in aphakic versus normal monkey eyes
Mean adjusted intensities for the three arrays, fold increases and Genbank accession numbers (as noted in Clontech Atlas software) are given for ECM, protease, and cell adhesion transcripts expressed in the aphakic eye as determined using AtlasImage software. Mean fold change, standard deviation, standard error of the mean, and p value with and without Bonferroni correction for multiple comparisons are provided for each functional classification. A p value of less than 0.05 was considered statistically significant.
Extracellular matrix
Mean OD Mean OS OD/OS GenBank Gene
-------- -------- ----- ------- -------------------------------------------------
6220.50 356.00 17.47 X14420 procollagen 3α1 subunit precursor (COL3A1)
13514.67 2569.33 5.26 M14219 bone proteoglycan II precursor (PGS2);
decorin (DCN)
10850.67 2965.67 3.66 X57527 collagen 8α1 subunit (COL8A1)
15962.50 6250.50 2.55 U86759 netrin-2
2571.50 1040.00 2.47 X52022 collagen 6α3 subunit (COL6A3)
17211.00 7263.00 2.37 U32169 collagen 11α2 subunit (COL11A2)
23245.50 10108.50 2.30 J03040 secreted protein acidic and rich in cysteine
precursor (SPARC)
25301.00 11708.67 2.16 J04599 bone/cartilage proteoglycan 1 precursor; biglycan
(BGN); PGS1
19373.00 9072.00 2.14 X78565 tenascin precursor (TN); hexabrachion (HXB);
cytotactin
7430.33 4196.33 1.77 M24570 collagen 6α2 subunit (COL6A2)
12518.33 8021.67 1.56 L22548 collagen 18α1 subunit (COL18A1)
33012.00 21745.67 1.52 X63168 vitronectin precursor (VTN); serum spreading
factor
42086.33 29193.67 1.44 M55172 aggrecan core protein precursor (AGC1)
9569.33 7843.33 1.22 X98085 tenascin-R
Mean SD SE p value p Bonferroni
---- ---- ---- ------- ------------
3.42 4.18 1.12 <0.01 <0.01
Proteases
Mean OD Mean OS OD/OS Genbank Gene
-------- -------- ----- ------- -------------------------------------------------
7286.00 3924.00 1.86 M18082 placental plasminogen activator inhibitor 2
(PAI-2; PLANH2)
4273.50 2424.00 1.76 J03210 matrix metalloproteinase 2 (MMP2); 72-kDa
gelatinase A
2720.00 1597.00 1.70 A03911 glia-derived neurite-promoting factor (GDNPF)
27584.67 21883.67 1.26 L20471 basigin precursor (BSG); collagenase stimulatory
factor
3254.00 2688.50 1.21 L23808 matrix metalloproteinase 12 (MMP12);
metalloelastase
33598.00 29008.00 1.16 D50477 matrix metalloproteinase 16 precursor (MMP16);
(MT-MMP3)
18031.67 16026.00 1.13 L22005 ubiquitin conjugating enzyme E2 32-kDa
complementing protein
17593.50 16739.00 1.05 X89579 matrix metalloproteinase 17 (MMP17); (MT-MMP4)
4734.67 4512.00 1.05 J05070 matrix metalloproteinase 9 (MMP9); 92-kDa type IV
collagenase precursor
26011.00 24846.50 1.05 M15518 tissue-type plasminogen activator precursor
(T-plasminogen activator; TPA)
34985.67 35226.67 0.99 X03124 tissue inhibitor of metalloproteinases 1 (TIMP1)
22062.00 25208.00 0.88 U78095 bikunin; hepatocyte growth factor activator
inhibitor 2
6218.00 7184.50 0.87 U83117 sentrin; ubiquitin-like protein SMT3C
24341.33 29685.33 0.82 U60519 caspase-10 precursor (CASP10); ICE-LIKE
apoptotic protease 4 (ICE-LAP4)
16435.00 20622.00 0.80 U20536 caspase-6 precursor (CASP6); cysteine protease
MCH2 isoforms α+β
2648.50 3352.00 0.79 X57766 matrix metalloproteinase 11 (MMP11);
stromelysin 3
3771.00 5138.33 0.73 D26512 matrix metalloproteinase 14 precursor (MMP14);
(MT-MMP1)
22046.33 30961.00 0.71 U56390 caspase-9 precursor (CASP9); ICE-like apoptotic
protease 6 (ICE-LAP6)
4131.33 7641.33 0.54 J05593 tissue inhibitor of metalloproteinases 2 (TIMP2)
5614.00 15618.00 0.36 U60520 caspase-8 precursor (CASP8); ICE-like apoptotic
protease 5 (ICE-LAP5)
3038.50 9407.50 0.32 Y08622 matrix metalloproteinase 18 (MMP18)+MMP19
2802.00 8871.00 0.32 Z30183 tissue inhibitor of metalloproteinases 3 (TIMP3)
77.00 4573.50 0.02 X07819 matrix metalloproteinase 7 (MMP7); matrilysin
Mean SD SE p value p Bonferroni
---- ---- ---- ------- ------------
0.93 0.46 0.09 0.05 1.00
Adhesion
Mean OD Mean OS OD/OS GenBank Gene
-------- -------- ----- ------- ----------------------------------------
5132.00 1253.50 4.09 L34060 cadherin 8 (CDH8)
19216.00 5746.50 3.34 M59911 integrin α3 (ITGA3); galactoprotein
B3 (GAPB3)
11195.50 3946.00 2.84 L25851 integrin αE precursor (ITGAE)
20978.00 9735.50 2.15 X74295 integrin α7B precursor (IGA7B)
13215.33 6316.33 2.09 X87838 β-catenin (CTNNB)
20526.00 10365.33 1.98 L12350 thrombospondin 2 precursor (THBS2; TSP2)
28870.33 17711.67 1.63 M73780 integrin β8 precursor (ITGB8)
43335.00 29328.00 1.48 L36531 integrin α8 (ITGA8)
26078.00 18182.50 1.43 D13866 α1 catenin (CTNNA1); cadherin
associated protein
21832.33 15387.67 1.42 U72661 ninjurin-1
33197.33 24223.67 1.37 M94151 α-catenin related protein (CAPR); α2
catenin (CTNNA2)
23904.00 19732.50 1.21 U24497 polycystin precursor; autosomal dominant
polycystic kidney disease protein 1
14286.50 13199.50 1.08 U53786 envoplakin (EVPL)
19596.67 18559.00 1.06 M62880 integrin β7 precursor (ITGB7)
10153.50 14233.00 0.71 X53587 integrin β4 (ITGB4); CD104 antigen
Mean SD SE p value p Bonferroni
---- ---- ---- ------- ------------
1.86 0.93 0.24 <0.01 <0.01
|