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 |