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Microarray analysis

Tìm thấy 16+ kết quả cho từ khóa "Microarray analysis"

Microarray analysis of infectious bronchitis virus infection of chicken primary dendritic cells

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All of the biological replicates were pooled and calculated to identify differentially expressed microRNAs based on a threshold fold change >. 4 LncRNA microarray analysis of IBV-stimulated avian BMDCs. a Volcano plot map of lncRNA expression levels in control avian BMDCs and IBV-stimulated avian BMDCs at 12 h post-infection.

Screening of Streptococcus Suis serotype 2 resistance genes with GWAS and transcriptomic microarray analysis

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With the development of GWAS and transcriptomic microarray technology, we now have powerful research tools to identify SS2 resistance genes.. With the F 2 generation of these two mice strains and GWAS analysis, we identified 286 significant mouse genome SNPs sites associated with the SS2 resistance trait. GO classification and over-representation analysis revealed nine up-regulated related to immune function, which could potentially be involved in the C57BL/6 SS2 resistance trait..

Comprehensive investigation of the gene expression system regulated by an Aspergillus oryzae transcription factor XlnR using integrated mining of gSELEXSeq and microarray data

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However, only 51 genes among them were included in the inter- secting subset of genes identified by the gSELEX-Seq and the microarray analysis (Fig. ory- zae cells, we speculate that most of the other 1897 genes are false positives in gSELEX analysis. However, it is pos- sible that the subset of the 1897 genes might include un- identified DEGs by the microarray analysis, which was conducted with mRNA extracted from mycelia that had.

Clustering analysis of large-scale phenotypic data in the model filamentous fungus Neurospora crassa

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All data used for this study (including phenotypes for individual mutants) are available in the Additional files, the main tables and figures of the manuscript, or at the links in the table, below. figures-only#fig-data-additional-files Microarray analysis of the Δ mak-. query/acc.cgi?acc=GSE41778 Microarray analysis of the Δ mak-. The genome sequence of the filamentous fungus Neurospora crassa. Enabling a community to dissect an organism: overview of the Neurospora functional genomics project.

Transcriptional profiling and pathway analysis reveal differences in pituitary gland function, morphology, and vascularization in chickens genetically selected for high or low body weight

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Data from the microarray analysis were processed, normalized, and trimmed as described earlier using software that is part of the TM4 suite of microarray data analysis applications [74] freely available from The Institute for Genomic Research (TIGR, Rock- ville, MD). 90% of the lowest median pixel intensity for the salmon DNA control spots (back- ground. 8 spots/slide) among all slides were also elimi- nated from further consideration, as were any spots that were not detectable on at least half of

Changes in the liver transcriptome of farmed Atlantic salmon (Salmo salar) fed experimental diets based on terrestrial alternatives to fish meal and fish oil

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However, they are included herein as also pertinent to this study, as were used in the selection of the three dietary groups for the transcriptomic analysis.. One hundred and twenty-two differentially expressed probes were detected in the microarray analysis of the liver transcriptome of fish fed the three experimental di- ets (Additional file 2). Table 2 Growth parameters of the Atlantic salmon fed the three experimental diets.

Transcriptome profiling revealed early vascular smooth muscle cell gene activation following focal ischemic stroke in female rats – comparisons with males

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The expression of the target genes in the occluded MCAs, non-occluded MCAs and control MCAs from the microarray analysis can be found in Fig.

Uncovering the molecular signature underlying the light intensity-dependent root development in Arabidopsis thaliana

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− 1 light intensity from microarray analysis of WT root. a DEGs under 150 vs 112 μ mol m − 2 s − 1 b DEGs under 150 vs 75 μ mol m − 2 s − 1 c DEGs under 150 vs 38 μ mol m − 2 s − 1 d DEGs under 112 vs 75 μ mol m − 2 s − 1 e DEGs under 112 vs 38 μ mol m − 2 s − 1 f DEGs under 75 vs 38 μ mol m − 2 s − 1 light intensity from microarray analysis for the functionality of DEGs in 5-days old WT root.

L-lactate induces specific genome wide alterations of gene expression in cultured bovine granulosa cells

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Raw data from the microarray analysis were initially ana- lyzed by principal component analysis (PCA) to reduce the multidimensionality of the dataset. Individual samples of the dataset were plotted and revealed the greatest vari- ability between the different groups of culture conditions on the x-axis with a variation of 30.9% (Fig. Individual samples of the same culture condition clustered tightly together.

Global mRNA decay and 23S rRNA fragmentation in Gluconobacter oxydans 621H

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The mRNA decay analysis additionally revealed an apparent instability of the full-length 23S rRNA. Enrichment of ribosomes and fur- ther analysis of the associated rRNAs uncovered that the 23S rRNA is fragmented in G. Cells were grown in 500 mL shaking flasks with three baffles containing 50 mL of the mannitol medium (30 ° C, 140 rpm). The DNA microarray analysis aimed at the determin- ation of the time-dependent mRNA level changes in G..

What makes a bad egg? Egg transcriptome reveals dysregulation of translational machinery and novel fertility genes important for fertilization

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Inter- estingly, despite the statistical significance in the dif- ferential regulation of U1 (Fig. 2g), the expression of this gene was regulated in the opposite direction by qPCR as compared to by microarray analysis.

Gene expression profiling analysis to investigate the role of remote ischemic postconditioning in ischemia-reperfusion injury in rats

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In addition, considering the critical issues for the translation from experimental cardioprotection stud- ies to clinical patient benefit [49], more results of the clinical trials or molecular tests from the patients are re- quired to support our gene expression profiling analysis data from the rat models.. Additional file 1: Table S1. The primer sequences used in the qPCR assay. Quality controls of the microarray analysis.. Additional file 3: Table S2.

Histological, transcriptomic and in vitro analysis reveal an intrinsic activated state of myogenic precursors in hyperplasic muscle of trout

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Gene expression profiling of the hyperplastic growth zones of the late trout embryo myotome using laser capture microdissection and microarray analysis. Gene expression profiling of trout regenerating muscle reveals common transcriptional signatures with hyperplastic growth zones of the post-embryonic myotome

RNA-Seq analysis reveals transcript diversity and active genes after common cutworm (Spodoptera litura Fabricius) attack in resistant and susceptible wild soybean lines

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A microarray analysis revealed 100 down-regulated tran- scripts in the susceptible line NN [15]. Two hundred and sixteen and 698 down-regulated DEGs were identi- fied in the resistant lines WX and NN after the CCW at- tack via RNA-Seq analysis, respectively [5]. In wild soybean, 585 and 634 DEGs were down-regulated in the resistant line W99 at 1 d and 3 d, respectively (Fig. 3a), and 265 and 35 DEGs were down-regulated in the sus- ceptible line W11 at 1 d and 2 d, respectively (Fig.

Differential expression profiling of ΔlitR and ΔrpoQ mutants reveals insight into QS regulation of motility, adhesion and biofilm formation in Aliivibrio salmonicida

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By microarray analysis we identified a number of LitR regulated genes, among these genes were genes of the syp operon (VSA- L_II0295-VSAL_II0312) and rpoQ sigma factor (VSA- L_II0319) homologs of the A. The inactivation of the rpoQ gene in A..

Comparative transcriptome and translatome analysis in contrasting rice genotypes reveals differential mRNA translation in salt-tolerant Pokkali under salt stress

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Previous studies have apllied microarray analysis to identify differentially expressed genes (DEGs) in Pok and IR29 genotypes exposed to salt stress [19 – 22]. In this study, we used RNA-Seq to analyze transcriptome as well as translatome (mimicking the proteome component) of Pok and IR29 under salt stress. The transcriptome and translatome profiles revealed distinct differences between Pok and IR29 without salt stress (basal expression).

Transcriptome analysis reveals differential immune related genes expression in bovine viral diarrhea virus-2 infected goat peripheral blood mononuclear cells (PBMCs)

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Microarray analysis reveals distinct signaling pathways transcriptionally activated by infection with bovine viral diarrhea virus in different cell types.. Transcriptomic analysis of responses to cytopathic bovine viral diarrhea virus-1 (BVDV-1) infection in MDBK cells. Circulating MicroRNAs in serum from cattle challenged with bovine viral diarrhea virus. Transcription analysis of the porcine alveolar macrophage response to porcine circovirus type 2.

Microarray and metabolome analysis of hepatic response to fasting and subsequent refeeding in zebrafish (Danio rerio)

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Validation of the microarray gene expression data To confirm the significance of the differential mRNA ex- pression patterns observed in the microarray data, real- time PCR analysis was performed on selected genes that exhibited distinct temporal profiles during fasting and refeeding. There was also a good distinction be- tween groups, indicating differences in the metabolite contents among the different time points.

GCSscore: An R package for differential gene expression analysis in Affymetrix/ Thermo-Fisher whole transcriptome microarrays

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CEL files used in the GCSscore analysis were pulled directly from the corresponding GEO dataset:. For the purposes of this analysis of the GCSscore algorithm, we limited comparisons to just cerebral cortex. For the analysis of microarray data used in [19], GCS- scores for the 3 treated and 3 control. This results in 3 treatment replicate averages produced for each of 3 treatment sample against all of the control samples.

Genome-wide analysis of spatiotemporal expression patterns during rice leaf development

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A total of 1000 ng Cy3-labeled cRNA was fragmented and hybridized onto a slide of the rice 4 × 44 K microarray RAP-DB (G2519F#15241. After washing, the slides were scanned on an Agilent G2505B DNA microarray scanner, and background correction of the raw Cy3 signals was performed using Feature Extrac- tion 10.5.1.1 software (Agilent Technologies).. 50 in at least one of the 36 microarray datasets.