|
| Status |
Public on Jun 03, 2017 |
| Title |
FTC042 - follicular thyroid adenoma |
| Sample type |
RNA |
| |
|
| Source name |
follicular thyroid adenoma
|
| Organism |
Homo sapiens |
| Characteristics |
Sex: Female
age (years): 29
class: FTA
onco/pdtc: NO
ras: NO
diagnosis: 2 experts
origin: Poland
set: Primary
|
| Treatment protocol |
Tumor samples (fresh-frozen material) were derived from patients treated by thyroidectomy.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Samples (40–150 mg) were ground in liquid nitrogen and homogenized in RLT Buffer (Qiagen) with beta-mercaptoethanol. RNA was extracted using RNeasy Midi Kit (Qiagen) and re-purified with RNeasy Mini Kit (Qiagen), including a digestion step with RNase-free DNase I set (Qiagen)
|
| Label |
biotin
|
| Label protocol |
7 μL of double-stranded cDNA were used for labeling (IVT Labeling Kit; Affymetrix). Labeled cRNA was purified with GeneChip Sample Cleanup Module and fragmented. The quality of cRNA was assessed with Bioanalyzer 2000
|
| |
|
| Hybridization protocol |
Arrays were hybrized with Human Genome U133 2.0 PLUS array (Affymetrix) according protocol recommended in Affymetrix Gene Expression Analysis Technical Manual 701021 rev5
|
| Scan protocol |
Arrays were scanned in GeneArray 3000 scanner (Affymetrix) as recommended by the Affymetrix Gene Expression Analysis Technical Manual 701021 rev5
|
| Data processing |
The quality of the microarray data was analyzed using arrayMvout 1.12.0 library in R 2.14.1/Bioconductor environment. The data were pre-processed with the GCRMA method.
|
| |
|
| Submission date |
Jun 03, 2016 |
| Last update date |
Jun 03, 2017 |
| Contact name |
Aleksandra Pfeifer |
| Organization name |
MSC Memorial Cancer Center and Institute of Oncology
|
| Street address |
Wybrzeze Armii Krajowej 15
|
| City |
Gliwice |
| ZIP/Postal code |
44-101 |
| Country |
Poland |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE82208 |
Gene expression markers differentiating between malignant and benign follicular thyroid tumors |
|
