|
| Status |
Public on May 03, 2019 |
| Title |
P3-1-Illu-FF |
| Sample type |
RNA |
| |
|
| Source name |
Breast cancer tissue.
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: breast cancer
time point: pre-treatment biopsy
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from fresh frozen tissue using the Qiagen miRNeasy kit.
|
| Label |
biotin
|
| Label protocol |
RNA was reverse transcribed and amplified using the WT-Ovation FFPE System Version 2 (NuGEN), purified using the Qiaquick PCR Purification Kit (Qiagen), biotinylated using the IL Encore Biotin Module (NuGEN), purified using minElute Reaction Cleanup Kit (Qiagen) and quantified once again using the Nanodrop 2000c (Thermo Scientific).
|
| |
|
| Hybridization protocol |
Labelled cDNA was hybridised to Human HT-12v4 whole-genome expression beadarrays (Illumina) according to the standard protocol for NuGEN amplified samples.
|
| Scan protocol |
Scanning was performed on a Illumina scanner using the manufacturers protocol
|
| Description |
Patient 3 pre-treatment biopsy sequenced using Illumina HT12-V4 technology from fresh frozen.
SAMPLE 7
|
| Data processing |
Illumina probe profiles were quantile normalised using the lumi package
|
| |
|
| Submission date |
Apr 29, 2019 |
| Last update date |
May 04, 2019 |
| Contact name |
Carlos Martinez-Perez |
| E-mail(s) |
[email protected]
|
| Organization name |
The University of Edinburgh
|
| Department |
Institute of Genetics and Molecular Medicine
|
| Street address |
Western General Hospital, Crewe Road South
|
| City |
Edinburgh |
| ZIP/Postal code |
EH4 2XU |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL10558 |
| Series (2) |
| GSE130460 |
Unlocking the transcriptomic potential of formalin-fixed paraffin embedded clinical tissues: Comparison of gene expression profiling approaches [Illumina] |
| GSE130645 |
Unlocking the transcriptomic potential of formalin-fixed paraffin embedded clinical tissues: Comparison of gene expression profiling approaches |
|
