|
| Status |
Public on Aug 22, 2009 |
| Title |
Patient 2727137, renal graft bx Z16, diagnosis non-rejecting |
| Sample type |
RNA |
| |
|
| Source name |
Biopsy from non-rejecting human transplanted kidney
|
| Organism |
Homo sapiens |
| Characteristics |
patient identifier: 2727137
sex: male
age of patient: 53
serum creatinine: 117 microMol/L
renal graft bx: Z16
banff'97: non-rejecting
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen, Hilden, Germany).
|
| Label |
biotin
|
| Label protocol |
Labeled probes were prepared either according to the Affymetrix 2-cycle cDNA amplification protocol (Affymetrix, Santa Clara, CA) from 50 ng total RNA of all biopsy samples, or from 5 microg of total RNA of all control kidney samples according to the standard Affymetrix protocol. The cDNA was transcribed in vitro in the presence of biotinylated ribonucleotides (Bioarray high-yield T7 DNA transcription kit; ENZO Life Sciences, Inc.). The biotinylated cRNA was purified on an affinity resin (RNeasy; Qiagen), quantified, and fragmented into strands of 50–200 nucleotides in length.
|
| |
|
| Hybridization protocol |
Hybridization of arrays was carried out at 45°C for about18 h, then arrays were stained on a GeneChip Fluidics Workstation 450 according to the manufacturer’s technical manual (Affymetrix).
|
| Scan protocol |
GeneChips were scanned on a GeneArray Scanner 3000 according to the manufacturer’s technical manual (Affymetrix).
|
| Description |
Gene expression data from core human renal allograft biopsy (16 gauge) with histological diagnosis of no rejection
|
| Data processing |
The data were analyzed using global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 150.
|
| |
|
| Submission date |
Aug 20, 2009 |
| Last update date |
Aug 21, 2009 |
| Contact name |
Andreas Scherer |
| E-mail(s) |
Andreas.Scherer@Spheromics.com
|
| Organization name |
Spheromics
|
| Street address |
Pajutie 3A
|
| City |
Kontiolahti |
| ZIP/Postal code |
81100 |
| Country |
Finland |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE9493 |
Transcriptomic analyses of renal allograft biopsies reveal conserved rejection signatures and molecular pathways |
| GSE17861 |
Analyses of heterogeneous renal allograft biopsies reveal conserved rejection signatures and molecular pathways I, partB |
|
