|
| Status |
Public on Apr 09, 2015 |
| Title |
Native liver biopsy PNF_SK13 |
| Sample type |
RNA |
| |
|
| Source name |
Native liver biopsy PNF
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: liver
condition: PNF DCD
|
| Treatment protocol |
FFPE sections and samples were processed using the FFPE RNA pure kit from Roche, following the manufacturer's protocol.
|
| Growth protocol |
N/A
|
| Extracted molecule |
total RNA |
| Extraction protocol |
High Pure FFPE RNA Micro Kit ( Roche Applied Sciences) was used to extract total RNA from FFPE liver sections or slides according to manufacturers instructions
|
| Label |
biotin
|
| Label protocol |
Total RNA containing miRNA was enriched using microcon YM-100 centrifugal filter device ( Millipore Cat no: 42413,) according to the manufacturer's protocol. 100 ng of enriched RNA was labeled using Flashtag biotin RNA labeling kit ( Genisphere) according to protocol by Genisphere for labeling RNA for affymetrix Genechip RNA.
|
| |
|
| Hybridization protocol |
After labeling, 21.5 ug of RNA was hybridized for 16 hr at 48°C on GeneChip miRNA 2.0 Arrays . GeneChips were washed and stained in the Affymetrix Genechip fluidis 450 station.
|
| Scan protocol |
Hybridized samples were scanned using Genechip scanner 3000 7G (Affymetrix)
|
| Description |
Sample name: SK13
total RNA with miRNA enrichment
archived formalin fixed histology sample
|
| Data processing |
miRNA QC Tool v1.0.33.0 , algorithim default was used with the following settings: Detection ( Background detection), Background adjustment (BC-CG Adjustment), Normalization (Quantile), Other Process (Add small constant, CVS tab), Other Processes (Threshhold), Summarization ( Median Polish))
|
| |
|
| Submission date |
Apr 08, 2015 |
| Last update date |
Apr 09, 2015 |
| Contact name |
siamak salehi |
| E-mail(s) |
siamak.salehi@kcl.ac.uk
|
| Organization name |
kings college hospital
|
| Department |
liver studies
|
| Street address |
denmark hill
|
| City |
london |
| ZIP/Postal code |
se5 9rs |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL14613 |
| Series (1) |
| GSE67689 |
The microRNA expression profile in donation after cardiac death (DCD) livers and its ability to identify primary non function |
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