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Series GSE33360 Query DataSets for GSE33360
Status Public on Nov 02, 2011
Title Discovery of novel microRNAs in rat kidney using microarray analyses
Platform organisms Petromyzon marinus; Danio rerio; Oryzias latipes; Xenopus laevis; Xenopus tropicalis; Gallus gallus; Ornithorhynchus anatinus; Ateles geoffroyi; Macaca mulatta; Macaca nemestrina; Symphalangus syndactylus; Pan paniscus; Pan troglodytes; Pongo pygmaeus; Homo sapiens; Canis lupus familiaris; Equus caballus; Sus scrofa; Bos taurus; Ovis aries; Mus musculus; Rattus norvegicus; Takifugu rubripes; Taeniopygia guttata; Rhinopithecus bieti; Saguinus labiatus; Tetraodon nigroviridis
Sample organism Rattus norvegicus
Experiment type Non-coding RNA profiling by array
Summary MicroRNAs are small non-coding RNAs that regulate a variety of biological processes. In the last version of the miRBase database (Release 17), 720 mouse microRNAs are accompanied by only 408 rat microRNAs. Given the importance of rat as a model organism, we used next generation sequencing and microarray technologies to discover novel microRNAs in rat kidneys.
Overall design Four male, 6-week-old Big Blue rats were treated with 10.0 mg/kg aristolochic acid(AA) 5 times a week for 12 weeks, four untreated rats as control. The animals were sacrificed 1 day after the last treatment and total RNA were isolated. All eight rat samples were used to deep sequencing analyses (University of Texas Southwestern Medical Center Microarray Core Facility), while 6 samples (3 AA-treated and 3 control) were used to custom vertebrate microRNA microarray analysis (LC Sciences). We used the miRanalyzer standalone version for the prediction of novel microRNAs and microRNA microarray to confirm novel microRNAs.
Contributor(s) Meng F, Hackenberg M, Li Z, Yan J, Chen T
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Submission date Nov 01, 2011
Last update date Mar 23, 2012
Contact name Fanxue Meng
Phone 870-543-7082
Organization name National Center for Toxicological Research
Street address 3900 NCTR Road, HFT-130
City Jefferson
State/province AR
ZIP/Postal code 72079
Country USA
Platforms (1)
GPL14819 LC Sciences_Vertebrate_microRNA_Version17 (MRA-1033)
Samples (6)
GSM825137 S01 Control 13-Af3
GSM825138 S02 Control 14-Af3
GSM825139 S03 Control 15-Af3
BioProject PRJNA149019

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE33360_RAW.tar 3.0 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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