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| Status |
Public on Feb 06, 2014 |
| Title |
Gene Expression of Kidney from FHH and Nr4a1 Deficient Rats |
| Organism |
Rattus norvegicus |
| Experiment type |
Expression profiling by array
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| Summary |
Nr4a1 deficient rats (Nr4a1-/-) were developed using the fawn hooded hypertensive rat (FHH), which provided a genetic background susceptible to kidney injury. Both groups of animals were evaluated for blood pressure, proteinuria, renal function, and whole transcriptome gene pathway changes. Gene expression profiling was performed at week 8, 16, and 24 using kidney from FHH and Nr4a1-/- rats. To identify differentially expressed gene between FHH and Nr4a1-/- two statistical methods were utilized: (1) FWER (family-wise error rate) procedure, p<0.05 and fold-change ±1.2 or greater; and/or (2) Benjamani and Hochberg FDR (false discovery rate) using p<0.05, and fold-change ±1.2 or greater. Two-way ANOVA using a p<0.01 or lower was performed to identify strain X time interaction effects between groups. Gene networks and functional analysis were evaluated through the use of Ingenuity Pathways Analysis .
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| Overall design |
FHH and Nr4a1-/- rats were grown to 8, 16, and 24 weeks of age and kidney tissue was harvested for transcriptome analysis (n=3 replicates/ per group/ time)
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| Contributor(s) |
Garrett MR |
| Citation(s) |
24722447 |
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| Submission date |
Feb 05, 2014 |
| Last update date |
May 08, 2014 |
| Contact name |
Michael R Garrett |
| E-mail(s) |
mrgarrett@umc.edu
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| Organization name |
University of Mississippi Medical Center
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| Department |
Pharmacology
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| Street address |
2500 North State Street
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| City |
Jackson |
| State/province |
MS |
| ZIP/Postal code |
39110 |
| Country |
USA |
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| Platforms (1) |
| GPL6247 |
[RaGene-1_0-st] Affymetrix Rat Gene 1.0 ST Array [transcript (gene) version] |
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| Samples (18)
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| GSM1322689 |
Nr4a1 kidney at week8, biological rep1 |
| GSM1322690 |
Nr4a1 kidney at week8, biological rep2 |
| GSM1322691 |
Nr4a1 kidney at week8, biological rep3 |
| GSM1322692 |
FHH kidney at week16, biological rep1 |
| GSM1322693 |
FHH kidney at week16, biological rep2 |
| GSM1322694 |
FHH kidney at week16, biological rep3 |
| GSM1322695 |
Nr4a1 kidney at week16, biological rep1 |
| GSM1322696 |
Nr4a1 kidney at week16, biological rep2 |
| GSM1322697 |
Nr4a1 kidney at week16, biological rep3 |
| GSM1322698 |
FHH kidney at week24, biological rep1 |
| GSM1322699 |
FHH kidney at week24, biological rep2 |
| GSM1322700 |
FHH kidney at week24, biological rep3 |
| GSM1322701 |
Nr4a1 kidney at week24, biological rep1 |
| GSM1322702 |
Nr4a1 kidney at week24, biological rep2 |
| GSM1322703 |
Nr4a1 kidney at week24, biological rep3 |
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| Relations |
| BioProject |
PRJNA237481 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE54714_RAW.tar |
81.3 Mb |
(http)(custom) |
TAR (of CEL, CHP) |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
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