|
| Status |
Public on Sep 04, 2024 |
| Title |
kidney biopsy [GSM3524194 re-analysis] |
| Sample type |
RNA |
| |
|
| Source name |
kidney biopsy
|
| Organism |
Homo sapiens |
| Characteristics |
rej7aaclust (nr, minor, tcmr1, tcmr2, eabmr, fabmr, labmr): TCMR2
tissue: kidney biopsy
|
| Extracted molecule |
total RNA |
| Extraction protocol |
All human heart biopsies taken for clinical indication during the period specified above were included. Tissue was immediately placed in RNA later.
Tissue was homogenization in 0.5ml of Trizol reagent (Invitrogen, Carlsbad, CA) and total RNA was extracted and purified using the Rneasy Micro Kit (Quiagen, Ontario, Canada) (average yield 8µg/core, (RNA integrity number >7).
|
| Label |
biotin
|
| Label protocol |
Total RNA (0.5µg) was labeled using GeneChip 3` IVT Express Labeling kit. Quality of labeled aRNA was assessed on an Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA) before hybridization to GeneChip® PrimeView™ Human Gene Expression Array
|
| |
|
| Hybridization protocol |
(Affymetrix, Santa Clara, CA). Amplified RNA (10ug) was hybridized for 16 hr at 45C on GeneChip® PrimeView™ Human Gene Expression Array . GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using Gene Array Scanner 3000 7G (Affymetrix) and processed with GeneChip® Command Console® Software (AGCC)(Affymetrix).
|
| Data processing |
Microarray data files were preprocessed using robust multi-chip averaging (RMA) implemented in Bioconductor.
|
| |
|
| Submission date |
Aug 18, 2024 |
| Last update date |
Sep 04, 2024 |
| Contact name |
Jessica Chang |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Alberta
|
| Department |
Medicine
|
| Lab |
ATAGC
|
| Street address |
250 Heritage Medical Research Centre
|
| City |
Edmonton |
| ZIP/Postal code |
T6G 2S2 |
| Country |
Canada |
| |
|
| Platform ID |
GPL13667 |
| Series (1) |
| GSE275126 |
Subthreshold rejection activity in many kidney transplants currently classified as having no rejection. |
|
| Relations |
| Reanalysis of |
GSM3524194 |
