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Sample GSM318492 Query DataSets for GSM318492
Status Public on Apr 13, 2010
Title Female human kidney sample No.98 tubulointerstitial fraction
Sample type RNA
Source name Human kidney sample No.98
Organism Homo sapiens
Characteristics Healthy tubulointerstitium
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 healthy female 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
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

Data table header descriptions
VALUE gcRMA signal

Data table
1007_s_at 338.67194
1053_at 10.043575
117_at 6.323115
121_at 842.5572
1255_g_at 4.308284
1294_at 21.70775
1316_at 16.063517
1320_at 5.6465764
1405_i_at 10.796448
1431_at 6.062863
1438_at 4.329574
1487_at 161.40338
1494_f_at 4.880533
1598_g_at 62.59037
160020_at 7.0464864
1729_at 99.73639
177_at 69.8621
1773_at 3.962666
179_at 3.7728684
1861_at 6.178981

Total number of rows: 22277

Table truncated, full table size 446 Kbytes.

Supplementary file Size Download File type/resource
GSM318492.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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