|
| Status |
Public on Oct 07, 2014 |
| Title |
FTC4 |
| Sample type |
RNA |
| |
|
| Source name |
thyroid tumor
|
| Organism |
Homo sapiens |
| Characteristics |
malignity: malignant
sample type: snap frozen
tumor type: follicular carcinoma
|
| Growth protocol |
miRNA expression profiling was performed for 17 freshly frozen FTC samples and 8 freshly frozen FA samples, macrodisected from primary tumor
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Before miRNA expression profiling, the FTC samples were reviewed by two independent pathologists for the occurrence of capsular- or vascular invasion, the histopathological hallmarks of FTCs
|
| Label |
oligonucleotide beads
|
| Label protocol |
Labeling was carried out according to the manufacturer’s instructions (Illumina, San Diego, CA, USA)
|
| |
|
| Hybridization protocol |
Hybridization was carried out according to the manufacturer’s instructions (Illumina, San Diego, CA, USA)
|
| Scan protocol |
Scanning was performed with BeadArray Reader
|
| Description |
FTC
|
| Data processing |
All of the data sets were normalized with quantile normalization in R/Bioconductor by preprocessCore library. log2 transformation was applied to diminish the effect of skewed microarray intensity distributions. For our data we additionally applied centering around mean miRNA expression values of FTC samples to diminish technical differences between chips. All miRNAs in all four data sets were annotated with miRBase version 20. 2 versions of normalized file are available: one with miRNA annotation and other with probe sequence annotation.
|
| |
|
| Submission date |
Oct 03, 2014 |
| Last update date |
Oct 07, 2014 |
| Contact name |
Tomasz Stokowy |
| E-mail(s) |
tomasz.stokowy@uib.no
|
| Organization name |
University of Bergen
|
| Department |
IT Division
|
| Lab |
Scientific Computing
|
| Street address |
Nygardsgaten 5
|
| City |
Bergen |
| ZIP/Postal code |
5020 |
| Country |
Norway |
| |
|
| Platform ID |
GPL8179 |
| Series (1) |
| GSE62054 |
A two miRNA classifier differentiates follicular thyroid carcinomas from follicular thyroid adenomas |
|
