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Platform GPL4748 Query DataSets for GPL4748
Status Public on Aug 15, 2007
Title rat angiogenesis oligo array
Technology type spotted oligonucleotide
Distribution non-commercial
Organism Rattus norvegicus
Manufacturer Medical College of Wisconsin/Department of Physiology
Manufacture protocol The custom microarrays were manufactured at the Department of Physiology at the Medical College of wisconsin. The microarrays were printed witha GMS 417 robotic arrayer from Affymetrix (made by Genetic Microsystesm that has a printhead with 4 pin and ring print tips. Arrays were prepared from 70 mer oligonucleotides that correlated to approximately 128 genes related to angiogenesis and approximately 12 genes considered to be positive controls;positive control genes were either genes considered to be generally highly expressed genes in the kidney, and/or genes known to be influenced by ischemia reperfusion injury in the rat kidney. In addition, 10 cDNA derived from Research genetics clone sets were included for comparison but were not included in the final analysis. All oligonucleotides and cDNA were resuspended in 50% DMSO and printed onto poly-L-lysine coated glass slides.Negeative control spots were included thatconsisted of 50% water/50% DMSO. Each gene was printed on each slide between 6-12 times. Blank spots, included for background determination were printed 96 times. Spots were printed with 300 microns center to center, with a spot diameter of approximately 120-150 mucrons. Print configuration is in 12 blocks in a 2 X 6 arrangement and a total of 1152 spots per slide. Positive controls were included in each block. After printing, spoted nucleotides were cross linked to the slides by UV irradiation at 65 mJ (Stratalinker UV cross-linker, Stratagene) Thge microarrays were post processed according to the procedures on the Stanform website (http;// and subsequently stored at room temperatures in a dessicated chamer until use.
Support glass
Coating other
Contributor(s) Fredrich K, Basile D
Submission date Jan 15, 2007
Last update date Aug 15, 2007
Contact name David Basile
Phone 317-278-1565
Fax 317-274-3318
Organization name Indiana University
Department Cellular & Integrative Physiology
Street address 635 Barnhill Drive
City Indianapolis
State/province IN
ZIP/Postal code 46202
Country USA
Samples (8) GSM155391, GSM155392, GSM155393, GSM155394, GSM155395, GSM155396 
Series (3)
GSE6748 renal ischemia vs sham - 24h
GSE6749 renal ischemia vs sham - 7d
GSE7040 Effects of renal ischemia on angiogenic gene expression

Data table header descriptions
ID refers to a unique identifying number for each gene
ORF refers to a common abreviation of the gene

Data table
ID listnumber1 ORF SPOT_ID
141 337 osteopontin
151 193 Timp1
61 568 Adamts1
101 387 Fn1
86 699 cyclophilin
113 110 Smad1
144 259 Id3
11 990 ATPase NaK alpha1
34 1115 AngptL4
138 925 Plau
25 474 Ctgf
84 759 osteopontin
36 761 Timp1
8 492 Sparc
109 182 Tgfb2
105 164 EfnB1
9 666 B-actin
0 707 Blank
145 823 S100A4
79 573 Mdk

Total number of rows: 151

Table truncated, full table size 2 Kbytes.

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp

Supplementary data files not provided

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