Lungs from bleomycin-treated A/J mice
Ontology highlight
ABSTRACT:
ORGANISM(S): Mus musculus
PROVIDER: GSE451 | GEO | 2003/06/11
SECONDARY ACCESSION(S): PRJNA85047
REPOSITORIES: GEO
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Project description:Profile of gene expression of lungs from bleomycin-treated C129svJ mice.
2010-06-05 | E-GEOD-452 | biostudies-arrayexpress
Project description:Profile of gene expression of lungs from bleomycin-treated A/J mice.
2010-06-05 | E-GEOD-451 | biostudies-arrayexpress
Project description:Purpose: Explore whether bleomycin treatment will induce changes of metabolic genes expression via next-generation sequencing (NGS) in mouse lung tissues. Methods: Four groups of wild type mice were intratracheally injected with 25 µl PBS or bleomycin (15 mg/kg) after anesthetization. 10 days after bleomycin treatment, lung tissues were removed for RNA collection. Three samples per group were mixed to one sample and used for next RNA purification. RNA samples were then used for high-throughput sequencing according to standard operation based on RNA BGISEQ-500. Results: Using an optimized data analysis workflow, we mapped about 21.9 million sequence reads per sample to the mouse genome (build mm10) and identified 1024 upregulated and 936 downregulated genes in lungs of bleomycin-treated mice. RNA-seq data had a linear relationship with qRT–PCR for more than four orders of magnitude. Altered expression of 20 genes was confirmed with qRT–PCR, demonstrating the high degree of sensitivity of the RNA-seq method. Hierarchical clustering of differentially expressed genes uncovered metabolic changes of many carbohydrates, amino acid and fatty acid. Data analysis with BWA and TopHat workflows revealed a significant overlap yet provided complementary insights in metabolism profiling. Conclusions: Our study represents the first detailed analysis of metabolic changes in lungs of bleomycin-treated mice with biologic replicates, generated by RNA-seq technology. The optimized data analysis workflows reported here should provide a framework for comparative investigations of expression profiles. We conclude that RNA-seq based metabolic genes characterization would expedite genetic network analyses and permit the dissection of complex biologic functions.
2019-02-19 | GSE123808 | GEO
Project description:Profile of gene expression of lungs from ovalbumen sensitized and challenged C57 mice. Keywords: parallel sample
2003-06-10 | GSE447 | GEO
Project description:Profile of gene expression in lungs of ovalbumen sensitized and challenged C3H mice. Keywords = C3H, lung, ovalbumen, mouse, Mus musculus, mice Keywords: parallel sample
2003-06-10 | GSE446 | GEO
Project description:Profile of gene expression in lungs of ovalbumen sensitized and challenged A/J mice. Keywords: parallel sample
2003-06-11 | GSE450 | GEO
Project description:Changes of metabolic genes expression in lungs of bleomycin-treated mice
| PRJNA509902 | ENA
Project description:Pulmonary fibrosis is a disease characterized by inflammatory cell infiltration, scar formation, deposition of extracellular matrix, alveolar epithelial cell injury and hyperplasia. To determine if alterations in microRNA expression contribute to these phenotypes, microRNA expression profiling of the lungs from bleomycin treated C57Bl/6J mice, relative to that of untreated controls, was undertaken. Mice were treated at 8 weeks old with 100 Units/kg of bleomycin delivered subcutaneously with osmotic minipumps. At 42 days post treatment mice were euthanized and lung microRNA isolated. We identified 11 microRNA's to be significantly differentially expressed (FDR threshold of 0.01) in the lungs of bleomycin treated mice and confirmed these data with real time PCR measurements. These included bleomycin upregulated miR-34a, 335-5p, 207, 21, 301a, 146b, 199a-5p, and 449a and bleomycin downregulated miR-151-3p, 26a and 676. We have previously shown that 1558 genes are differentially expressed in the lungs of bleomycin treated mice. Of the 1412 targets of upregulated microRNAs, 142 were confirmed to be downregulated in the gene expression profile (GEP). Of the 583 targets of downregulated microRNAs, 53 were confirmed to be upregulated in the gene expression profile. Pathway analysis of the microRNA targets and GEP overlapping genes indicated that altered microRNA expression is associated with cellular development, cellular growth, cellular proliferation and changed tissue/cell morphology. Specific pathways include HGF signaling, Cholecystokinin/Gastrin-mediated signaling, Endothelin-1 signaling, RAR activation, Phospholipase C signaling and IGF1 signaling. We conclude that altered microRNA expression is a feature of pulmonary fibrosis which putatively influences components of the altered airway disease. Two condition study, C57Bl/6J mice treated with 100 Units/kg bleomycin and untreated controls. Biological replicated n =3 for each group. Left lung tissue.
2013-09-01 | E-GEOD-45789 | biostudies-arrayexpress
Project description:Pulmonary fibrosis is a disease characterized by inflammatory cell infiltration, scar formation, deposition of extracellular matrix, alveolar epithelial cell injury and hyperplasia. To determine if alterations in microRNA expression contribute to these phenotypes, microRNA expression profiling of the lungs from bleomycin treated C57Bl/6J mice, relative to that of untreated controls, was undertaken. Mice were treated at 8 weeks old with 100 Units/kg of bleomycin delivered subcutaneously with osmotic minipumps. At 42 days post treatment mice were euthanized and lung microRNA isolated. We identified 11 microRNA's to be significantly differentially expressed (FDR threshold of 0.01) in the lungs of bleomycin treated mice and confirmed these data with real time PCR measurements. These included bleomycin upregulated miR-34a, 335-5p, 207, 21, 301a, 146b, 199a-5p, and 449a and bleomycin downregulated miR-151-3p, 26a and 676. We have previously shown that 1558 genes are differentially expressed in the lungs of bleomycin treated mice. Of the 1412 targets of upregulated microRNAs, 142 were confirmed to be downregulated in the gene expression profile (GEP). Of the 583 targets of downregulated microRNAs, 53 were confirmed to be upregulated in the gene expression profile. Pathway analysis of the microRNA targets and GEP overlapping genes indicated that altered microRNA expression is associated with cellular development, cellular growth, cellular proliferation and changed tissue/cell morphology. Specific pathways include HGF signaling, Cholecystokinin/Gastrin-mediated signaling, Endothelin-1 signaling, RAR activation, Phospholipase C signaling and IGF1 signaling. We conclude that altered microRNA expression is a feature of pulmonary fibrosis which putatively influences components of the altered airway disease.
2013-09-01 | GSE45789 | GEO