|
| Status |
Public on Aug 12, 2017 |
| Title |
Tumor Nephrectomy [H1-Glom-TN1] |
| Sample type |
RNA |
| |
|
| Source name |
Kidney biopsy
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: glomeruli from kidney biopsy
batch: 1
|
| Treatment protocol |
none
|
| Growth protocol |
none
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using Rneasy kit (Qiagen) following manufacturer's protocol
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from total RNA (Expression Analysis Technical Manual, Affymetrix).
|
| |
|
| Hybridization protocol |
GeneChip arrays were scanned by GeneChip Scanner 3000 7G according to the Affymetrix Expression Analysis Technical Manual.
|
| Scan protocol |
The data were analyzed using GenePattern pipeline: RMA method and Human Entrez Gene custom CDF annotation version 18 was used for the normalization
|
| Description |
Gene Expression data from the glomeruli of human Tumor Nephrectomy
|
| Data processing |
Each of the hybridization was normalized seperately and the last sheet contains the batchcorrected data using Combat. Background data was filtered by excluding all genes that did not have at least one expression value exceeding the median plus 2 standard deviations of the Affymetrix negative control expression.
|
| |
|
| Submission date |
May 26, 2017 |
| Last update date |
Jan 23, 2018 |
| Contact name |
Felix Eichinger |
| E-mail(s) |
eichinge@umich.edu
|
| Organization name |
The University of Michigan
|
| Department |
Division of Nephrology
|
| Street address |
1150 W. Medical Center Drive
|
| City |
Ann Arbor |
| State/province |
Michigan |
| ZIP/Postal code |
48109 |
| Country |
USA |
| |
|
| Platform ID |
GPL19184 |
| Series (2) |
| GSE99339 |
Transcriptome-based network analysis reveals renal cell type-specific dysregulation of hypoxia-associated transcripts [glomeruli] |
| GSE99340 |
Transcriptome-based network analysis reveals renal cell type-specific dysregulation of hypoxia-associated transcripts |
|
