|
| Status |
Public on Aug 05, 2009 |
| Title |
Recipient 6 diagnosed as ACR-predominant with superimposed RHC |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
21 Total RNAs mixture from normal liver labeled with Cyanine-3 (green).
|
| Organism |
Homo sapiens |
| Characteristics |
Mixture of total RNA from human normal liver
|
| Treatment protocol |
Liver biopsy samples were collected within 30 minutes from the time of liver biopsy, 2mm width ×5mm length, and immediately stored with RNAase inhibitor and stored at -85°C until RNA extraction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was purified from the clinical samples utilizing TRIzol reagent (Invitrogen, San Diego, CA) using the protocol supplied by the manufacturer.
|
| Label |
Cy3
|
| Label protocol |
Amino Allyl aRNA was synthesized by Amino Allyl MessageAmp aRNA Amplification Kit (Ambion). CyeDye coupling and fragmentation were performed using the protocol supplied by Hitachi Software Engineering Co., Ltd. (DNA Chip Research Inc. / AceGene website).
|
| |
|
| Channel 2 |
| Source name |
Total RNA from recipient represented the clinicopathological diagnoses for ACR-predominant with superimposed RHC
|
| Organism |
Homo sapiens |
| Characteristics |
liver biopsy tissue
ACR-predominant with superimposed RHC
|
| Treatment protocol |
Liver biopsy samples were collected within 30 minutes from the time of liver biopsy, 2mm width ×5mm length, and immediately stored with RNAase inhibitor and stored at -85°C until RNA extraction.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was purified from the clinical samples utilizing TRIzol reagent (Invitrogen, San Diego, CA) using the protocol supplied by the manufacturer.
|
| Label |
Cy5
|
| Label protocol |
Amino Allyl aRNA was synthesized by Amino Allyl MessageAmp aRNA Amplification Kit (Ambion). CyeDye coupling and fragmentation were performed using the protocol supplied by Hitachi Software Engineering Co., Ltd. (DNA Chip Research Inc. / AceGene website).
|
| |
|
| |
| Hybridization protocol |
Hybridized for 16 h at 42 °C. Hybridization buffer and washing protocol was followed by the protocol supplied by Hitachi Software Engineering Co., Ltd. (DNA Chip Research Inc. / AceGene website)
|
| Scan protocol |
ScanArray HT (PerkinElmer Japan Co., Ltd.) was used for scanning. Array images were analyzed with DNASIS Array V2.6(Hitachi Software Engineering Co., Ltd.).
|
| Description |
Liver biopsy samples were collected within 30 minutes from the time of liver biopsy, 2mm width ×5mm length, and immediately stored with RNAase inhibitor and stored at -85°C until RNA extraction.
|
| Data processing |
In each sample, the Cy5/Cy3 ratio values were log-transformed and global equalization to remove a deviation of the signal intensity between whole Cy3- and Cy5-fluorescence was performed by subtracting a median of all log (Cy5/Cy3) values from each log (Cy5/Cy3) value. Genes with missing values in more than 10% of samples were excluded from further analysis.
|
| |
|
| Submission date |
Nov 03, 2008 |
| Last update date |
Mar 26, 2009 |
| Contact name |
Tadafumi Asaoka |
| E-mail(s) |
tasaoka@gesurg.med.osaka-u.ac.jp
|
| Phone |
+81-6-6879-3251
|
| Fax |
+81-6-6879-3259
|
| Organization name |
Osaka University
|
| Department |
Surgery
|
| Street address |
2-2, Yamadaoka
|
| City |
Suita |
| ZIP/Postal code |
565-0871 |
| Country |
Japan |
| |
|
| Platform ID |
GPL1291 |
| Series (1) |
| GSE13440 |
Transcriptome patterns for Acute Cellular Rejection in Recipients with Recurrent Hepatitis C after Liver Transplantation |
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