Similar Datasets
Project description:Goal: Determine differences in gene expression profile between microglia and macrophages isoalted from the brains of mice during viral-induced neuroinflammation. Methods: microglia and macrophages were obtained by FACS cells sorting (based on CD45 and CD11b level of expression) from brains of C57BL/6J mice, 6 days post i.c infection with TMEV or injection with PBS. RNA was extracted with TRYzol and precipitated using glycogen. polyA mRNA was enriched using oligo d(T)25 magnetic beads Smarter Stranded RNA-Seq Kit was then utilized to prepare cDNA library for RNA-seq. Results: Using RNA-seq and later RT-qPCR to validate our candidates, we found genes that are speifically expressed by activated microglia or infiltrating macrophages during viral-induced neuroinflamamtion
2019-07-22 | GSE127233 | GEO
Project description:RT-qPCR of metabolite and ICB exposed organoids
| PRJNA804125 | ENA
Project description:Sanger sequencing and RT-qPCR data for validation used in Primary lymphomas of the central nervous system (PCNSL).
| EGAD00001008583 | EGA
Project description:CETP transfers lipids and cholesteryl esters between lipoproteins. This leads to elevated LDL-cholesterol levels. We found elevated cholesterol levels in the brains CETP transgenic animals. We wanted to test whether this is due to increased cholesterol synthesis by astrocytes 2 animals that were genotyped as wild type showed CETP transcription in our RT-qPCR (WT_1 & WT_5) and were excluded
2018-03-01 | GSE111242 | GEO
Project description:Arabidopsis thaliana has been used regularly as a model plant in gene expression studies on transcriptional reprogramming upon pathogen infection, such as that by Pseudomonas syringae pv. tomato DC3000 (Pst DC3000), or when subjected to stress hormone treatments including jasmonic acid (JA), salicylic acid (SA), and abscisic acid (ABA). RT-qPCR has been extensively employed to quantitate these gene expression changes. However, the accuracy of the quantitation is largely dependent on the stability of the expressions of reference genes used for normalization. Recently, RNA-seq has been widely used to mine stably expressed genes for use as references in RT-qPCR. However, the amplification step in RNA-seq creates an intrinsic bias against those genes with relatively low expression levels, and therefore does not provide an accurate quantification of all expressed genes. In this study, we employed mass spectrometry-based label-free quantification (LFQ) in proteomic analyses to identify those proteins with abundances unaffected by Pst DC3000 infection. We verified, using RT-qPCR, that the levels of their corresponding mRNAs were also unaffected by Pst DC3000 infection. In addition, using RT-qPCR, we verified that the mRNAs were stably expressed upon stress hormone treatments including JA, SA, and ABA. Results indicated that the candidate genes identified here had stable expressions upon these stresses and are suitable to be used as reference genes for RT-qPCR. Among the 18 candidate reference genes reported in this study, many of them had greater expression stability than the commonly used reference genes, such as ACT7, in previous studies. Here, besides proposing more appropriate reference genes for Arabidopsis expression studies, we also demonstrated the capacity of mass spectrometry-based LFQ to quantify protein abundance and the possibility to extend protein expression studies to the transcript level.
2022-09-05 | PXD035677 | Pride
Project description:In this study we present an experimental pipeline that takes into consideration sample collection, processing, enrichment, and the subsequent comparative analysis of circulating small ribonucleic acids using small RNA sequencing and RT-qPCR. Initially, a panel of miRNAs dysregulated in circulating blood from breast cancer patients compared to healthy women were identified using small RNA sequencing. MiR-320a was identified as the most dysregulated miRNA between the two female cohorts. Total RNA and enriched small RNA populations (<30 bp) isolated from peripheral blood from the same female cohort samples were then tested using a miR-320a RT-qPCR assay. When total RNA was analyzed with this miR-320a RT-qPCR assay, a 2.3-fold decrease in expression levels was observed between blood samples from healthy controls and breast cancer patients. However, upon enrichment for the small RNA population and subsequent analysis of miR-320a using RT-qPCR, its dysregulation in breast cancer patients was more pronounced with an 8.89-fold decrease in miR-320a expression.
2015-08-30 | GSE72080 | GEO
Project description:This study aims to investigate the microRNA profile in human medullary carcinoma tissue by microarray analysis and RT-qPCR. Matched tumor and adjacent normal tissue were obtained from 24 patients and analysed using human microRNA Microarray Kit Agilent, Differentially expressed miRNAs were validated by RT-qPCR using 37 other tumors samples (validation set), Associations of microRNA expression with clinicopathological items were studied
2014-12-15 | GSE40807 | GEO
Project description:RT-qPCR analysis in zebrafish Viperin KO fish under VHSV infections
| PRJNA1051642 | ENA
Project description:For in vivo experiments, mice were inoculated a lethal dose of CVA2 strain (104 TCID50/mouse) or equal volume of culture supernatant of RD cells that were uesd to cultivate virus. Total RNA was extracted from brains, lungs, hearts and skeletal muscle of mice at 3 days post infection (dpi), 5 dpi and corresponding controls using TRIzol reagent to quantitate inflammation-related genes from the CVA2 infected mice and control. qPCR gene expression profiling. Brains, lungs, hearts and skeletal muscles from four groups were treated separately. Equal amount total RNA from each organ or tissue of mice was harvested to analyze inflammation-related genes.
2021-11-26 | GSE189549 | GEO