Table 4 of
Wride, Mol Vis 2003;
9:360-396.Table 4 of
Wride, Mol Vis 2003;
9:360-396.
Table 4. Genes potentially preferentially expressed in lens compared to non lens samples as determined by K-Means Clustering
Genes potentially preferentially expressed in lens compared to non lens samples as determined by K-Means Clustering. Genes in each cluster are listed. The accession number, the gene identity, and the normalized intensity values for each sample are shown. Genes confirmed as preferentially expressed in the lens by semi-quantitative RT-PCR are indicated by an asterisk ("*"). Genes tested, but not confirmed as preferentially expressed in the lens by semi-quantitative RT-PCR are indicated by a sharp symbol ("#"). The remaining genes were untested.
Ratio
lens
New 7 day 14.5 Max to
Accession Adult born old Skeletal day ES Min non non
number Identity lens lens lens muscle Liver embryo Brain cells lens lens lens
--------- --------------------- ----- ----- ----- -------- ----- ------ ----- ----- ----- ---- -----
All samples for cluster 7
AI426509 Mus musculus lens 6.5 4.4 3 0.2 0.2 0.2 0.3 0.2 3 0.3 10
epithelial cell
protein (Lep503)
gene, complete cds*
AI426196 ESTs 3.7 2.4 2.8 0.5 0.5 0.4 0.5 0.4 2.4 0.5 4.8
AI322438 lysyl oxidase-like* 2.6 1.9 2 0.4 0.4 0.4 0.4 0.3 1.9 0.4 4.8
AI425997 ESTs, Weakly similar 4 2.3 2.6 0.5 0.5 0.4 0.5 0.4 2.3 0.5 4.6
to neuronal-specific
septin3 [M.
musculus]#
AI430932 ESTs, Highly similar 3 2.4 2.3 0.5 0.5 0.4 0.4 0.3 2.3 0.5 4.6
to cyclin K
[M. musculus]
AI451231 ESTs 3.3 2.2 2.1 0.4 0.4 0.4 0.5 0.3 2.1 0.5 4.2
AI327009 mutS homolog 3 (E. 3.2 2.1 2.4 0.5 0.5 0.5 0.4 0.4 2.1 0.5 4.2
coli)
AI447932 ESTs 3.2 2.4 2.1 0.5 0.5 0.5 0.5 0.3 2.1 0.5 4.2
AI465160 ESTs 3.5 2 2 0.5 0.5 0.5 0.5 0.3 2 0.5 4
AI414192 ESTs 2.9 2 2.2 0.4 0.5 0.4 0.4 0.3 2 0.5 4
AI448660 ESTs 2.7 2.4 2.3 0.5 0.6 0.5 0.5 0.3 2.3 0.6 3.8
AI426324 ESTs 2.1 1.9 1.9 0.5 0.4 0.4 0.4 0.3 1.9 0.5 3.8
AI447293 EST 3.2 2.2 2.2 0.6 0.5 0.5 0.6 0.4 2.2 0.6 3.7
AI450133 ESTs 3.1 2.2 2.3 0.5 0.5 0.5 0.6 0.4 2.2 0.6 3.7
AI451100 ESTs 3 2.1 1.8 0.5 0.5 0.5 0.5 0.3 1.8 0.5 3.6
AI666732 ESTs 2.1 1.8 1.9 0.5 0.5 0.5 0.5 0.3 1.8 0.5 3.6
AI447233 ESTs 3.4 2.4 2.1 0.6 0.5 0.4 0.6 0.3 2.1 0.6 3.5
AI326913 cyclin-dependent 2.9 2.1 2.1 0.6 0.5 0.6 0.5 0.5 2.1 0.6 3.5
kinase regulatory
subunit 1
AI661287 transforming growth 2.6 2.3 2.1 0.5 0.6 0.6 0.6 0.4 2.1 0.6 3.5
factor, beta induced,
68 kDa#
AI447983 EST 2.5 2.1 2.6 0.6 0.4 0.4 0.5 0.3 2.1 0.6 3.5
AI415257 M. musculus Fus2 2.6 1.7 2 0.5 0.5 0.4 0.5 0.4 1.7 0.5 3.4
mRNA, complete cds
AI415665 calumenin 2.1 1.7 2 0.5 0.5 0.4 0.4 0.3 1.7 0.5 3.4
AI327378 ATPase, class 5# 3.7 2.8 1.3 0.3 0.4 0.4 0.4 0.4 1.3 0.4 3.3
AI415416 ESTs 2.5 1.6 1.8 0.4 0.5 0.4 0.5 0.3 1.6 0.5 3.2
AI451660 ESTs 2.5 1.6 1.7 0.5 0.4 0.4 0.5 0.3 1.6 0.5 3.2
AI426929 hormonally 2.3 2.1 1.6 0.5 0.5 0.5 0.5 0.4 1.6 0.5 3.2
upregulated
Neu-associated kinase
AI415362 ESTs, Highly similar 2.3 2.1 1.6 0.5 0.5 0.4 0.5 0.4 1.6 0.5 3.2
to hypothetical
protein [H. sapiens]
AI447938 ESTs 2.2 1.8 1.6 0.5 0.5 0.5 0.5 0.3 1.6 0.5 3.2
AI414484 DNA segment, Chr 14, 1.9 2 2 0.5 0.6 0.4 0.5 0.3 1.9 0.6 3.2
University of
California at Los
Angeles 1#
AI430817 ESTs 3.5 2.2 2.3 0.5 0.5 0.7 0.5 0.3 2.2 0.7 3.1
AI447945 ESTs 2.7 2.1 2.4 0.7 0.5 0.4 0.5 0.4 2.1 0.7 3
AI465284 Mus musculus Golgi 3.3 1.8 2 0.6 0.5 0.5 0.5 0.4 1.8 0.6 3
SNARE GS15 mRNA,
complete cds
AI596358 ESTs 2.6 1.5 1.7 0.5 0.4 0.5 0.5 0.4 1.5 0.5 3
AI447219 ESTs 2.3 1.8 2.1 0.6 0.4 0.3 0.4 0.3 1.8 0.6 3
AI662051 ESTs 2.8 2.6 2.3 0.5 0.5 0.5 0.8 0.3 2.3 0.8 2.9
AI413927 ESTs 3.2 1.7 2 0.5 0.5 0.6 0.5 0.4 1.7 0.6 2.8
AI666740 ESTs 2.7 1.7 1.9 0.6 0.4 0.5 0.4 0.4 1.7 0.6 2.8
AI323961 ESTs, Weakly similar 2.7 2.1 1.7 0.5 0.6 0.6 0.6 0.5 1.7 0.6 2.8
to HYPOTHETICAL 29.8
KD PROTEIN IN
THIC-HEME INTERGENIC
REGION [Escherichia
coli]
AI431055 ESTs 3.6 1.3 1.3 0.4 0.5 0.4 0.4 0.2 1.3 0.5 2.6
AI464327 EST# 4.5 1.5 1.7 0.5 0.6 0.5 0.6 0.4 1.5 0.6 2.5
AI323855 CD24a antigen* 4.7 2.5 2.6 0.8 0.3 1.6 0.2 0.2 2.5 1.6 1.6
AI324057 inter-alpha trypsin 3 1.9 1.9 0.4 1.4 0.5 0.4 0.3 1.9 1.4 1.4
inhibitor, heavy
chain 2
All samples for cluster 14
AI430876 ESTs 5.2 2.9 3 0.6 0.6 0.5 0.6 0.3 2.9 0.6 4.8
AI427165 v-src suppressed 4.5 3.4 2.8 0.5 0.5 0.6 0.6 0.5 2.8 0.6 4.7
transcript 1#
AI428574 ESTs# 5.6 4 4.6 0.9 0.8 0.7 0.7 0.6 4 0.9 4.4
AI426191 ESTs# 4.2 2.6 3 0.6 0.6 0.6 0.6 0.5 2.6 0.6 4.3
AI448691 EST 4.1 2.7 2.6 0.6 0.6 0.5 0.6 0.3 2.6 0.6 4.3
AI413888 ESTs 4.5 3.6 3.4 0.7 0.8 0.6 0.6 0.5 3.4 0.8 4.3
AI324050 ferrochelatase 3.2 2.5 2.4 0.6 0.6 0.6 0.6 0.5 2.4 0.6 4
AI447885 ESTs 3.9 3.2 3.2 0.8 0.6 0.6 0.7 0.4 3.2 0.8 4
AI413779 ESTs 3.4 2.9 2.8 0.7 0.6 0.5 0.6 0.4 2.8 0.7 4
AI448497 Dead ringer homolog2* 2.9 2.8 2.4 0.6 0.5 0.5 0.6 0.4 2.4 0.6 4
AI451495 EST* 4.2 3.1 3.5 0.8 0.6 0.7 0.7 0.6 3.1 0.8 3.9
AI451576 ESTs 3.8 2.9 2.6 0.7 0.6 0.5 0.6 0.5 2.6 0.7 3.7
AI465543 ESTs, Weakly similar 4.3 2.2 2.5 0.6 0.5 0.6 0.5 0.4 2.2 0.6 3.7
to HYPOTHETICAL 15.3
KD PROTEIN E02H1.6 IN
CHROMOSOME II
[Caenorhabditis
elegans]#
AI450079 ESTs 3.6 2.6 2.2 0.6 0.6 0.5 0.6 0.4 2.2 0.6 3.7
AI449510 ESTs, Highly similar 2.9 2.6 2.2 0.6 0.6 0.5 0.6 0.6 2.2 0.6 3.7
to HYPOTHETICAL
TRP-ASP REPEATS
CONTAINING PROTEIN IN
CPR4-SOL2 INTERGENIC
REGION [Saccharomyces
cerevisiae]
AI451111 ESTs 3.3 2.5 2.5 0.7 0.7 0.6 0.7 0.4 2.5 0.7 3.6
AI323822 transthyretin 3.9 3.2 3.1 0.9 0.9 0.7 0.8 0.6 3.1 0.9 3.4
AI661038 flotillin 1# 4.7 2.7 2.9 0.8 0.8 0.7 0.8 0.6 2.7 0.8 3.4
AI450210 ESTs 4 2.3 2.5 0.6 0.5 0.5 0.7 0.4 2.3 0.7 3.3
AI660999 ESTs, Moderately 2.8 2.2 2.5 0.7 0.6 0.5 0.6 0.4 2.2 0.7 3.1
similar to M-phase
phosphoprotein 8
[H. sapiens]
AI450087 ESTs 2.8 2.3 2.1 0.6 0.6 0.7 0.6 0.4 2.1 0.7 3
AI447900 ESTs 5.6 3.1 2.7 0.9 0.6 0.7 0.8 0.3 2.7 0.9 3
AI415232 ESTs 4.5 2.4 3.5 0.8 0.7 0.6 0.8 0.5 2.4 0.8 3
AI429829 ESTs 3.5 2.4 2.7 0.7 0.7 0.6 0.9 0.6 2.4 0.9 2.7
AI448385 ESTs 3.3 2.4 2.8 0.9 0.6 0.6 0.8 0.6 2.4 0.9 2.7
AI666546 ESTs, Weakly similar 3.1 2.6 2.1 0.8 0.7 0.6 0.8 0.6 2.1 0.8 2.6
to (defline not
available 5453421)
[M. musculus]
AI528741 procollagen, type IV, 4.5 4.4 2.8 0.7 0.4 1.1 0.5 0.4 2.8 1.1 2.5
alpha 1*
AI413971 ESTs, Moderately 3.5 2.1 2.4 0.9 0.6 0.6 0.7 0.9 2.1 0.9 2.3
similar to BLEOMYCIN
HYDROLASE
[Oryctolagus
cuniculus]
AI447884 ESTs 3 2.4 2 1.1 1 0.6 1.4 0.5 2 1.4 1.4
AI451645 ESTs 3.4 2.3 1.8 0.7 0.9 1.1 1.3 0.5 1.8 1.3 1.4
All samples for cluster 17
AI323909 crystallin, gamma A 202.6 244.1 140.3 0.2 0.2 0.3 0.2 0.2 140.3 0.3 467.7
AI414621 crystallin, gamma E 91.4 81.7 42.5 0.3 0.3 0.3 0.2 0.2 42.5 0.3 141.7
AI325927 crystallin, beta A1* 54.7 52.6 54.6 0.2 0.4 0.3 0.2 0.2 52.6 0.4 131.5
AI323924 crystallin, gamma C 27.9 21 12 0.2 0.3 0.3 0.2 0.2 12 0.3 40
AI324706 Mus musculus mRNA for 12.4 9.9 11.3 0.3 0.2 0.3 0.3 0.2 9.9 0.3 33
beta-A2-crystallin
(cryba2 gene)
AI323675 PCTAIRE-motif protein 8.3 7.8 5.9 0.2 0.2 0.2 0.2 0.2 5.9 0.2 29.5
kinase 3#
AI323353 Major intrinsic 9.6 7.3 6.1 0.2 0.3 0.3 0.2 0.2 6.1 0.3 20.3
protein of eye lens
fiber*
All samples for cluster 31
AI447387 Ceramide kinase* 4.3 3.1 3.4 1.1 0.9 0.9 1 0.8 3.1 1.1 2.8
AI451652 ESTs 3.6 3.2 3.1 1.2 0.8 0.8 1 0.7 3.1 1.2 2.6
AI450031 Mus musculus ring-box 3.4 2.8 2.6 1.1 0.9 0.8 1.1 1.1 2.6 1.1 2.4
protein 1 (Rbx1)
mRNA, complete cds
AI326773 histidine rich 4.2 3.7 3.5 1.5 1.1 1 1.2 0.8 3.5 1.5 2.3
calcium binding
protein
AI447618 ESTs 2.9 2.5 2.6 1.1 0.8 0.7 1 0.7 2.5 1.1 2.3
AI415042 ESTs 5.2 3.8 4.1 1.7 1.2 1.2 1.4 1.2 3.8 1.7 2.2
AI894153 ESTs, Highly similar 2.4 3.6 2.8 1.1 0.8 0.8 1 0.7 2.4 1.1 2.2
to HEMATOPOIETIC
PROGENITOR CELL
ANTIGEN CD34
PRECURSOR
[M. musculus]#
AI414773 ESTs, Highly similar 4.3 4.1 4.6 1.9 1.4 1.3 1.4 1.3 4.1 1.9 2.2
to TEB4 protein
[H. sapiens]
AI326815 ESTs, Highly similar 3.8 3 3.4 1.2 1 1.3 1.4 0.9 3 1.4 2.1
to
POLYADENYLATE-BINDING
PROTEIN [Xenopus
laevis]
AI451605 ESTs, Weakly similar 3.4 2.2 2.3 1 0.8 0.8 0.9 1.1 2.2 1.1 2
to beta-transducin
repeat-containing
protein [M. musculus]
AI447398 ESTs 3.3 2.4 2.7 1.1 1.2 1 1.1 0.8 2.4 1.2 2
AI327375 ESTs, Weakly similar 3.3 2.8 2.6 1.3 0.9 0.9 1.1 0.9 2.6 1.3 2
to HYPOTHETICAL 91.2
KD PROTEIN IN
RPS7A-SCH9 INTERGENIC
REGION [Saccharomyces
cerevisiae]
AI428470 ESTs 3.5 3 3.2 1.5 1.3 1 1.5 1.5 3 1.5 2
AI450141 ESTs 5 3.3 3.7 1.7 1.1 0.9 1.5 1.3 3.3 1.7 1.9
AI451891 ESTs 5 3.3 3.4 1.7 1.1 1.1 1.2 1.5 3.3 1.7 1.9
AI429637 DNA segment, Chr 6, 4 3.3 3.8 1.7 1.3 1.1 1.6 1.2 3.3 1.7 1.9
Miriam Meisler 5,
expressed
AI447828 ESTs 4.1 3.3 2.9 0.7 0.6 0.8 1.1 1.5 2.9 1.5 1.9
AI450829 ESTs, Highly similar 3.6 2.3 2.8 1.2 0.8 0.7 0.8 0.8 2.3 1.2 1.9
to choline/
ethanolamine
phosphotransferase
[H. sapiens]
AI428377 EST L26697 2.9 2.1 2.2 1.1 0.9 0.8 1.1 0.8 2.1 1.1 1.9
AI661325 ESTs# 4.2 3 3.1 1.6 1 1 1.4 1.1 3 1.6 1.9
AI413964 coagulation factor II 2.6 2.6 2.4 1.3 1.3 1.1 1.2 1.1 2.4 1.3 1.8
(thrombin)
receptor-like 3
AI426244 EST 2 2.3 2.3 1 1 0.8 1.1 0.8 2 1.1 1.8
AI448252 ESTs, Weakly similar 4.1 2.7 2.9 1.5 0.9 1 1.2 0.8 2.7 1.5 1.8
to K02F3.10
[C.elegans]
AI414205 nucleoredoxin 4.5 3 3 1.7 1.3 1.1 1.4 1 3 1.7 1.8
AI447680 ESTs 3.2 2.9 3.4 1.7 1.1 1 1.5 1.1 2.9 1.7 1.7
AI464573 DNA segment, Chr 12, 3.9 2.8 2.7 1.6 1 1 1.4 1.2 2.7 1.6 1.7
Wayne State
University 28,
expressed
AI451075 ESTs, Moderately 2.1 1.8 2.2 1.1 1.1 0.8 1 0.8 1.8 1.1 1.6
similar to CGI-48
protein [H. sapiens]
AI450085 ESTs, Moderately 3.8 2.1 2.4 0.6 0.6 1.1 0.7 1.3 2.1 1.3 1.6
similar to
HYPOTHETICAL 90.0 KD
PROTEIN T20B12.1 IN
CHROMOSOME III
[Caenorhabditis
elegans]
AI451694 ESTs 2.5 2.1 2.2 1.3 0.7 0.6 0.8 0.8 2.1 1.3 1.6
AI449524 ESTs 3.7 3 2.8 1.8 1.2 1.2 1.1 1.1 2.8 1.8 1.6
AI450336 EST 3.4 3.1 3.4 2 1 0.9 1.2 1.2 3.1 2 1.6
AI448657 ESTs, Moderately 2 2.4 2.6 1.3 0.9 0.8 1 0.7 2 1.3 1.5
similar to SPLICING
FACTOR,
ARGININE/SERINE-RICH
8 [H. sapiens]
AI413639 sex comb on midleg- 4.6 2.6 2.6 1.7 0.9 0.9 1 1 2.6 1.7 1.5
like 1 (Drosophila)
AI451173 ESTs 3 2.7 3.2 1.8 0.9 0.9 0.9 1.2 2.7 1.8 1.5
AI327379 ESTs, Moderately 1.8 2.1 2 1.2 0.8 0.8 0.9 0.8 1.8 1.2 1.5
similar to NEUROMEDIN
B PRECURSOR [Homo
sapiens]
AI450836 ESTs 2.8 2.7 2.8 1.8 1.1 1 1.5 1.1 2.7 1.8 1.5
AI427815 ESTs, Weakly similar 1.9 2 2.3 1.3 1.2 1.1 1.3 1 1.9 1.3 1.5
to actin-binding
protein [M. musculus]
AI415704 ESTs, Weakly similar 1.7 2.2 2.3 1.2 1 0.8 1 1.1 1.7 1.2 1.4
to predicted using
Genefinder
[C.elegans]
AI661333 selectin, platelet 2.5 2.2 2.2 1.6 1 1 1.2 1.5 2.2 1.6 1.4
(p-selectin) ligand
AI428577 ESTs, Weakly similar 2.5 1.9 1.9 0.9 0.8 1.1 0.8 1.4 1.9 1.4 1.4
to telencephalin
precursor
[M. musculus]
AI604771 ESTs 2.8 2.4 3 1.8 1.4 1.2 1.5 1.1 2.4 1.8 1.3
AI431078 ESTs 2.2 2.1 2.5 1.4 1.3 1 1.6 1.3 2.1 1.6 1.3
AI428283 ESTs 2.3 1.8 2.2 1.1 0.9 1.4 1.1 1.2 1.8 1.4 1.3
AI451211 ESTs, Highly similar 2.6 1.9 1.9 1.3 1.3 0.9 1.2 1.5 1.9 1.5 1.3
to RNA polymerase
transcriptional
regulation mediator
[H. sapiens]
AI415420 ESTs 2 1.9 2.3 1.5 1.1 1.1 1.5 1.1 1.9 1.5 1.3
AI661160 apoptosis inhibitor5# 4.6 3 3.7 2.4 1 1.1 1.5 1.5 3 2.4 1.3
AI528630 IL2-inducible T-cell 2.5 2.6 2.7 2 1.4 1.1 1.5 1.1 2.5 2 1.3
kinase
AI451014 ESTs 3.2 2.1 2.5 1.9 0.9 1.1 1.5 1 2.1 1.9 1.1
AI323295 DNA-damage inducible 1.6 2.3 2.3 1.2 1.5 0.9 1.2 1 1.6 1.5 1.1
transcript 3
AI451303 ESTs 3 2 2.2 1.9 1.1 1.1 1.3 1.6 2 1.9 1.1
AI661355 ESTs 2 2.2 2.2 1.9 1.3 1.1 1.4 0.9 2 1.9 1.1
AI465254 3.2 3 2.7 1.1 0.9 1.1 0.7 2.6 2.7 2.6 1
|