|
| Status |
Public on May 18, 2015 |
| Title |
Glomerular compartment from E0 LN human kidney (Toronto Glomerulonephritis Registry Biobank) H_IgA_13 |
| Sample type |
RNA |
| |
|
| Source name |
Kidney biopsy from human LN
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Glomeruli from kidney biopsy
phenotype: endocapillary proliferation E0
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using the RNeasy mini kit from Qiagen, following the manufacturer’s instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from total RNA (Expression Analysis Technical Manual, Affymetrix). GeneChip arrays were scanned by GeneChip Scanner 3000 7G according to the Affymetrix Expression Analysis Technical Manual.
|
| |
|
| Hybridization protocol |
Biotin labeled cDNA was fragmented and hybridized to Affymetrix Human Genome U133Plus2 GeneChip arrays for the Toronto cohort and HG-U133A for the ERCB cohort (Santa Clara, CA) according to the manufacturer protocol.
|
| Scan protocol |
GeneChip arrays were scanned by GeneChip Scanner 3000 7G according to the Affymetrix Expression Analysis Technical Manual.
|
| Description |
Gene expression data from the glomerular compartment of human LN kidney
|
| Data processing |
The data were analyzed using GenePattern pipeline: RMA method and Human Entrez Gene custom CDF annotation version 15 were used for the normalization; and Combat for batch correction.
|
| |
|
| Submission date |
Aug 29, 2013 |
| Last update date |
May 18, 2015 |
| Contact name |
Celine C Berthier |
| Organization name |
University of Michigan
|
| Street address |
1150 W. Medical Center Dr, MSRB2
|
| City |
Ann Arbor |
| State/province |
MI |
| ZIP/Postal code |
48109 |
| Country |
USA |
| |
|
| Platform ID |
GPL16356 |
| Series (1) |
| GSE50469 |
The molecular phenotype of endocapillary proliferation in IgA nephropathy and potential modulation by bioactive small molecules |
|
