We used a custom bioinformatics framework for the analysis of the microRNA expression profiles of 3 PTC, matched normal samples and lymph node metastases.
Fresh human tumour tissues with matched normal thyroid tissue and lymph node metastasis were obtained from 10 patients at surgery, and were immediately frozen in liquid nitrogen and stored at −70°C until processed.
Instead, the miRs that were positively regulated (miR-17* 3.03, miR-590-5p- 2.15, miR-1280 2.10) when all tumours were analysed became more highly up-regulated (miR-17* 4.66, miR-590-5p- 3.13, miR-1280 2.40) in the comparison of lymph node negative tumours versus matched normal tissue, but were not regulated in lymph node positive tumours.
Here, we provide detailed information regarding the design of a multi-platform dataset that describes genome-wide assessment of miRNA (assessed by microarray, GSE38167) and gene expression (assessed by microarray, GSE61723), as well as methylation (assessed by Illumina HM450K BeadChip, GSE78751) in TNBCs, matched normal adjacent tissues and matched lymph node metastases.
DNA was isolated from 65 samples including matched primary tumors tissue, matched normal tissue and their matched lymph node metastasis of 24 chines patients with breast cancer.
This is the only study to date that has analysed Dicer and Drosha in TNBC samples compared to matched normal adjacent tissue and matched lymph node metastases.
Quantitative methylation profile of the twelve candidate genes were compared among primary tissue, adjacent matched normal tissue and their matched lymph node metastasis using the two-way hierarchical cluster analysis.
In contrast, while miR-130a was down-regulated in the comparison of all tumour tissues (−2.21), it became more strongly down-regulated in lymph node positive tumours (−3.32) when they were compared to matched normal tissues, and was not regulated in lymph node negative cases.
We examined the expression of Dicer and Drosha in a series of invasive 35 TNBCs with matched normal adjacent tissues (n = 18) and lymph node metastases (n = 15) using semi-quantitative real time RT-PCR.
In this study we examined the expression of Dicer and Drosha in a series of 35 TNBCs with matched normal adjacent tissues (n = 18) and lymph node (LN) metastases (n = 15) using semi-quantitative real time RT-PCR.
