|
| Status |
Public on Apr 13, 2010 |
| Title |
Male human kidney sample No.65 tubulointerstitial fraction |
| Sample type |
RNA |
| |
|
| Source name |
Human kidney sample No.65
|
| Organism |
Homo sapiens |
| Characteristics |
Diseased tubulointerstitium
Male
|
| Treatment protocol |
Kidney tissue was obtained in the operating room immediately after removal from the patient. Tissue was placed into RNALater right after removal from the body and was kept at 4C. 1mmx1mm biopsy tissues were placed under Olympus model SZX12 stereomicroscope using 90 x magnification. The biopsy tissue was manually microdissected at 4C in RNALater for glomerular and tubular compartment using 2 fine tip (1mm) forceps. Dissected tissue was homogenized using Powergen125 (Fisher) homogenizer and stored at -80C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was prepared using RNAeasy mini columns (Qiagen, Valencia, CA) according to manufacturer’s instruction. RNA quality and quantity was determined using Lab-on-Chip Total RNA PicoKit, Agilent BioAnalyzer. Only samples without evidence of degradation were further used.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix Two-Cycle target preparation protocol from 10 ng total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG133A 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
|
| Description |
Gene expression data from diseased male tubuli
|
| Data processing |
The data were analyzed with ArrayAssist software using gcRMA as normalization method.
|
| |
|
| Submission date |
Sep 05, 2008 |
| Last update date |
Apr 13, 2010 |
| Contact name |
Han Si |
| E-mail(s) |
hsi@aecom.yu.edu
|
| Organization name |
AECOM
|
| Department |
Medicine/Nephrology
|
| Lab |
Susztak, Katalin MD, PhD
|
| Street address |
1300 Morris Park
|
| City |
Bronx |
| State/province |
NY |
| ZIP/Postal code |
10461 |
| Country |
USA |
| |
|
| Platform ID |
GPL571 |
| Series (1) |
| GSE12682 |
Expression data from Human Kidney (HK) samples |
|
