|
| Status |
Public on Nov 04, 2015 |
| Title |
N5_para-carcinoma liver |
| Sample type |
RNA |
| |
|
| Source name |
para-carcinoma liver
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: para-carcinoma liver
patient diagnosis: hepatocellular carcinoma
|
| Growth protocol |
Surgical fresh tissues from HCC patients' liver were stored at -80℃.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from about 30 mg tissues with the RNeasy Mini Kit (Qiagen), according to the manufacturer’s instructions. A 2-round amplification was performed with the ExpressArt TRinucleotide mRNA Amplification Kit (AmpTec) according to the manufacturer’s instructions.
|
| Label |
biotin
|
| Label protocol |
Samples were enzymatically fragmented and biotinylated using the GeneChip® 3' IVT Express Kit.
|
| |
|
| Hybridization protocol |
Samples were hybridized using GeneChip® 3' IVT Express Kit according to the manufacturer's instructions. Heat the hybridization cocktails at 99° for 5 minutes, then incubate the probe array filled with Pre-Hybridization Mix at 45℃ for 10 min with rotation. Transfer the cocktails to a 45℃ heat block for 5 min. Spin the hybridization cocktail at maximum speed in a microcentrifuge for 5 minutes to collect any insoluble material from the hybridization mixture. Remove the array from the hybridization oven. Vent the array with a clean pipette tip and extract the Pre-Hybridization Mix from the array with a micropipettor. Refill the array with the appropriate volume of the clarified hybridization cocktail. Place probe array into the hybridization oven, set to 45 °C. Hybridize for 16 hours.
|
| Scan protocol |
Affymetrix GeneChip® Scanner 3000 (GCS3000)
|
| Data processing |
Data were processed using Affymetrix Expression ConsoleTM Software Version 1.0 according to the User Guide. RMA analysis mainly includes 4 steps: background correction on the PM values; quantile normalization across all the chips in the experiment; log2 transformation; median polish summarization.
|
| |
|
| Submission date |
Nov 03, 2015 |
| Last update date |
Nov 04, 2015 |
| Contact name |
Huiyong Yin |
| E-mail(s) |
hyyin@sibs.ac.cn
|
| Organization name |
Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences
|
| Street address |
320 Yueyang Road, Xuhui District
|
| City |
Shanghai |
| ZIP/Postal code |
200031 |
| Country |
China |
| |
|
| Platform ID |
GPL16043 |
| Series (1) |
| GSE74656 |
Gene expression profiling of Human Hepatocellular Carcinoma tissues |
|
