This module enables interactive visualization of gene expression data from Microarray and RNA-seq experiments from the Gene Expression Omnibus (GEO). The Select a study to compare the expression of single genes across experimental groups as a boxplot, with the conditions on the x-axis and normalized expression levels on the y-axis.
| GSE Accession ID | Title | Organism | Assay | Num Samples | Submission Date | Study Design | PMID | Gene Viewer Link |
|---|---|---|---|---|---|---|---|---|
| GSE14221 | TgFVB vs FVB 6 and 8 week kidneys | Mus musculus | Expression profiling by array | 3 | Dec 25, 2008 |
Microarray data revealed that NGAL was one of the most highly upregulated gene the TgFVB mouse.
|
19628667 | |
| GSE35226-GPL1261 | Systems approach identifies HIPK2 as a critical regulator of kidney tubulointerstitial fibrosis | Mus musculus | Expression profiling by array | 11 | Jan 20, 2012 |
Gene expression comparison between kidney cortecies of Tg26 HIV mouse model and wild type. Gene expression comparison between 293 HEK cells with HIPK-DN, HIPK-KO and normal.
|
22406746 | |
| GSE35226-GPL6244 | Systems approach identifies HIPK2 as a critical regulator of kidney tubulointerstitial fibrosis | Homo sapiens | Expression profiling by array | 11 | Jan 20, 2012 |
Gene expression comparison between kidney cortecies of Tg26 HIV mouse model and wild type. Gene expression comparison between 293 HEK cells with HIPK-DN, HIPK-KO and normal.
|
22406746 | |
| GSE69074 | RTN1 IS A NOVEL MEDIATOR FOR PROGRESSION OF KIDNEY DISEASE | Mus musculus | Expression profiling by array | 8 | May 20, 2015 |
Animal studies: All animal studies were approved by the IACUC committee of Mount Sinai School of Medicine. HIV-1 transgenic mice, Tg26, and their littermates were generated and genotyped as described. Only male heterozygous Tg26 in the FVB/N background were used in the study, because homozygous HIV-transgenic mice are not viable for more than few weeks postnatally. UUO and folic acid-induced nephropathy models were created as described . Mice were grouped as wild type, Tg26 with mild kidney injury, Tg26, with serious kidney injury. The kidneys were collected from these mice for histology, western blot, real-time PCR analysis, and microarray studies. Kidney disease was confirmed by measurement of proteinuria, renal function, and histologic analysis.
|
26227493 | |
| GSE86269 | Gene Expression analysis of the HIVAN1 Susceptibility Locus in the FVB-HIVAN1CAST congenic strain | Mus musculus | Expression profiling by array | 38 | Aug 31, 2016 |
We performed microarray analysis with the Affymetrix ST 1.0 gene arrays on kidney RNA from 20 FVB-HIVAN1CAST congenic mice (11 females / 9 males) and 19 FVBN/J littermates (10 females / 9 males). Sample preparation, labeling and hybridization were performed as per Affymetrix recommended protocol. Signal intensities were normalized using the RMA method.
|
N/A |
|
| GSE87546 | Analysis of gene expression in HIV transgenic mice (TG26) with lymphoma in comparison to asymptomatic TG26 mice, and background control (FVBN).Tg26 carries a pNL4-3 HIV-1 provirus lacking part of the gag-pol region, rendering the virus non-infectious. | Mus musculus | Expression profiling by array | 29 | Oct 02, 2016 |
Gene expression analysis was performed using Affymetrix GeneChip Mouse Gene 1.0 ST to identify genes and pathways associated wirh B Cell Lymphoma in HIV-1 Transgenic Mice. Raw data pre-processing was monitored using standard diagnostic plots (i.e., 2-D image plots, RNA degradation plots, MA-plots, and box plots). Affymetrix microarray data were normalized at probe-level by using the Frozen Robust Multiarray Analysis (fRMA) method. A generalized linear model approach, coupled with empirical Bayes standard errors shrinkage, and including coefficients for data heterogeneity as derived from surrogate variable analysis (SVA), was used for identifying differentially expressed genes between animal groups. Correction for multiple testing was performed using the Benjamini–Hochberg method.
|
27799525 | |
| GSE117987 | Podocyte-specific induction of Krüppel-like factor 15 restores differentiation markers and attenuates kidney injury in proteinuric kidney disease | Mus musculus | Expression profiling by high throughput sequencing | 11 | Aug 01, 2018 |
Transcriptome analysis of Tg26 and Tg26 KLF15OE
|
30143559 |
This module was developed by the Ma'ayan Laboratory, and it is funded by NIH grants R01DK131525 and RC2DK131995.