Table 2 |
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|
Selection of genes identified using CIA |
|||||
|
Axis |
Cell lines |
Genes* |
Description |
Spotted cDNA |
Affymetrix |
|
|
|||||
|
F1 (mesenchymal) |
All CNS, Renal cells and the breast cancer cell line BR-Hs578T |
COL1A1 |
Collagen marker |
- |
+ |
|
COL4A1 |
Collagen marker |
+ |
- |
||
|
COL4A2 |
Collagen marker |
- |
+ |
||
|
TPM1 |
Muscle marker |
- |
+ |
||
|
VIM |
Vimentin |
- |
+ |
||
|
FN1 |
Fibronectin 1 |
+ |
+ |
||
|
TGFβ |
Inducer of EMT |
- |
+ |
||
|
CDH2 |
N-cadherin |
+ |
- |
||
|
MT2A |
Metallothionein A2-associated with invasive breast cancer |
- |
+ |
||
|
F1 (epithelial) |
All colon cells and the breast cancer cells MCF-7 and TR7D |
CDH1 |
E-cadherin, primary epithelial marker |
+ |
- |
|
SPINT2 |
Serine protease inhibitor, Kunitz type, 2 an inhibitor of hepatocyte growth factor |
+ |
+ |
||
|
KRT8 |
Keratin 8, epithelial marker |
+ |
+ |
||
|
KRT18 |
Keratin 18, epithelial marker |
- |
+ |
||
|
KRT19 |
Keratin 19, epithelial marker |
- |
+ |
||
|
DSP |
Desmoplakin I, epithelial marker |
+ |
- |
||
|
S100A2 |
Loss of S100A2 early event in melanoma development |
- |
+ |
||
|
F1 (colon cell markers) |
TACSTD1 |
Ep-Cam. Target antigen in colorectal carcinoma |
+ |
+ |
|
|
CDKN2A |
Target antigen in colorectal carcinoma |
+ |
- |
||
|
F1 (Leukaemia) |
All leukaemia cell lines |
ARHGDIB |
A lymphoid-specific guanosine diphosphate dissociation inhibitor |
+ |
+ |
|
LCP1 |
Lymphocyte cytosolic protein 1, L-plastin |
+ |
- |
||
|
IFITM1 |
An interferon induced transmembrane protein |
- |
+ |
||
|
F2 (Melanoma) |
All melanoma cells and the breast cancer cells BR_MDA and BR_MDAMB435 |
MITF |
Microphthalamia-associated transcription factor |
- |
+ |
|
TYR |
Tyrosinase |
- |
+ |
||
|
DCT |
Dopachrome tautomerase |
- |
+ |
||
|
TYRP1 |
Tyrosinase-related protein 1 |
- |
+ |
||
|
RAB7 |
Ras-associated protein 7 |
- |
+ |
||
|
MIA |
Melanoma inhibitory activity |
- |
+ |
||
|
MCAM |
MUC18, melanoma cell adhesion molecule MCAM |
+ |
- |
||
|
MAGE 3 |
Melanoma-associated antigen 3 |
- |
+ |
||
|
MAGE 12 |
Melanoma-associated antigen 12 |
- |
+ |
||
|
GPNMB |
Glycomembrane protein nmb |
- |
+ |
||
|
TIMP2 |
Tissue inhibitor of metalloproteinase 2 |
- |
+ |
||
|
TIMP3 |
Tissue inhibitor of metalloproteinase 3 |
+ |
- |
||
|
|
|||||
|
Genes identified on the first (F1) and second (F2) axes, where + or - indicated whether a gene was detected or not detected within the top 30 genes at the ends of each of these axes in CIA of Affymetrix and spotted cDNA array gene expression profiles of the NCI60 cell lines. These genes are graphically presented in Figure 4 and further details on these genes are available in the Results section. *Official gene symbol names are used for each gene. |
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|
Culhane et al. BMC Bioinformatics 2003 4:59 doi:10.1186/1471-2105-4-59 |
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