| Literature DB >> 26167814 |
Zbigniew Lorenc1, Mieszko Norbert Opiłka1, Celina Kruszniewska-Rajs2, Antoni Rajs2, Dariusz Waniczek3, Małgorzata Starzewska1, Justyna Lorenc1, Urszula Mazurek2.
Abstract
BACKGROUND: Colorectal Cancer (CRC) is one of the most frequently diagnosed neoplasms and also one of the main death causes. Cell adhesion molecules are taking part in specific junctions, contributing to tissue integrality. Lower expression of the cadherins may be correlated with poorer differentiation of the CRC, and its more aggressive phenotype. The aim of the study is to designate the cadherin genes potentially useful for the diagnostics, prognostics, and the treatment of CRC.Entities:
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Year: 2015 PMID: 26167814 PMCID: PMC4514365 DOI: 10.12659/MSM.893610
Source DB: PubMed Journal: Med Sci Monit ISSN: 1234-1010
Data of the starters used for amplification of fragments of genes CDH1, CDH3, GAPDH and β-actin.
| Starter’s name | Oligonucleotide sequence | Amplimer length | Gene | Location in the gene | Source of sequence |
|---|---|---|---|---|---|
| CDH1 | 5′-TGGGCCAGGAAATCACATCC-3′ | 140 bp | Cadherin 1 | 1627–1646 | GeneBank NM004360 |
| CDH1 | 5′-CTCAGCCCGAGTGGAAATGG-3′ | 1746–1765 | |||
| CDH3 | 5′-CCCCCAGAAGTACGAGGCCCA-3′ | 103 bp | Cadherin 3 | 2119–2139 | GeneBank NM004360 |
| CDH3 | 5′-ACGCCACGCTGGTGAGTTGG-3′ | 2202–2222 | |||
| βF | 5′-TCACCCACACTgTgCCCATCTACgA-3′ | 295 bp | β-actin | 2141–2165 | GeneBank NM_001101 |
| βP | 5′-CAgCggAACCgCTCATTgCCAATgg-3′ | 2411–2435 | |||
| GAPDH | 5′-GAAGGTGAAGGTCGGAGTC-3′ | 226 bp | glyceraldehyde-3-phosphate dehydrogenase (GAPDH), mRNA | 108–126 pz | GeneBank NM_002046 |
| GAPDH | 5′-GAAGATGGTGATGGGATTTC-3′ | 333–314 pz |
Figure 1Agglomerative hierarchical clustering of the profiles of normalized levels of mRNA in transcriptomes using microarrays GeneChip Human Genome U133A (Affymetrix). Vertical axis: The distance between the clusters. Horizontal axis: Probes.
Figure 2mRNA fluorescent signals in the indicated groups of transcriptomes.
Number of mRNA ID differentiating the analyzed groups.
| A | p value | All IDmRNA | p<0.05 | p<0.02 | p<0.01 | p<0.005 | p<0.001 |
|---|---|---|---|---|---|---|---|
| Number of IDmRNA | 28 | 4 | 0 | 0 | 0 | 0 | |
| C2 | 4 | 1 | 1 | 1 | |||
| C1 | 3 | 4 | 0 | 3 | |||
| LSC | 3 | 4 | 4 | 2 | |||
| HSC | 3 | 1 | 2 | 4 | |||
A – number of genes expression changes according to p value; B – group of transcriptomes shows comparison between individual groups with gene names with statistically different gene expression; C1 – control group 1; C2 – control group 2; LSC – low stage cancer; HSC – high stage cancer.
Figure 3Variations in the profile of mRNA expression of cadherins selected as differentiating cadherins, designated by oligonucleotide microarrays. (A) CDH1, (B) CDH3, (C) CDH5, (D) CDH13.
Change in the profile of expression of mRNA cadherins in individual analyzed groups for IDmRNAs that were selected as differentiating.
| IDmRNA | C1 | C1 | C2 | C2 | LSC | C1 |
|---|---|---|---|---|---|---|
| CDH1 201130_s_at | ↑ | ↑ | ↑ | ↑ | ↑ | |
| CDH1 201131_s_at | ↑ | ↑ | ↑ | |||
| CDH3 203256_at | ↓ | ↓ | ↓ | ↓ | ||
| CDH5 204677_at | ↓ | ↑ | ↓ | ↓ | ||
| CDH11 207172_s_at | ↓ | ↓ | ↓ | |||
| CDH11 207173_x_at | ↑ | ↓ | ↓ | ↓ | ||
| CDH13 204726_at | ↓ | ↓ | ↓ | |||
| CDH17 209847_at | ↑ | ↓ | ↑ | ↑ | ||
| CDH19 206898_at | ↑ | ↑ | ↓ |
Arrows indicate statistically significant changes; arrow direction indicates change of expression.