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Sample GSM318491 Query DataSets for GSM318491
Status Public on Apr 13, 2010
Title Female human kidney sample No.82 tubulointerstitial fraction
Sample type RNA
Source name Human kidney sample No.82
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 380.54474
1053_at 17.378546
117_at 6.2351418
121_at 1082.9625
1255_g_at 4.2065167
1294_at 21.78182
1316_at 18.117228
1320_at 5.2523165
1405_i_at 8.418138
1431_at 5.7853584
1438_at 4.2131805
1487_at 294.80536
1494_f_at 4.7475734
1598_g_at 174.13647
160020_at 6.4641495
1729_at 133.95851
177_at 49.367714
1773_at 3.868038
179_at 3.7476108
1861_at 11.452745

Total number of rows: 22277

Table truncated, full table size 446 Kbytes.

Supplementary file Size Download File type/resource
GSM318491.CEL.gz 2.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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