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3,272 results for “microarray”
Data from: Novel R pipeline for analyzing Biolog phenotypic microarray data
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Microarray Analysis of Space-flown Murine Thymus Tissue
Microarray Analysis of Space-flown Murine Thymus Tissue Reveals Changes in Gene Expression Regulating Stress and Glucocorticoid Receptors. We used microarrays to detail the gene expression of space-flown thymic tissue and identified distinct classes of up-regulated genes during this process. We report here microarray gene expression analysis in young adult C57BL/6NTac mice at 8 weeks of age after exposure to spaceflight aboard the space shuttle (STS-118) for a period of 13 days. Upon conclusion of the mission thymus lobes were extracted from space flown mice (FLT) as well as age- and sex-matched ground control mice similarly housed in animal enclosure modules (AEM). mRNA was extracted and an automated array analysis for gene expression was performed. Examination of the microarray data revealed 970 individual probes that had a 1.5 fold or greater change. When these data were averaged (n=4) we identified 12 genes that were significantly up- or down-regulated by at least 1.5 fold after spaceflight (p < 0.05). Together these data demonstrate that spaceflight induces significant changes in the thymic mRNA expression of genes that regulate stress glucocorticoid receptor metabolism and T cell signaling activity. These data explain in part the reported systemic compromise of the immune system after exposure to the microgravity of space.
Comparative gene expression analysis in the Arabidopsis thaliana root apex using RNA-seq and microarray transcriptome profiles
The root apex is an important section of the plant root involved in environmental sensing and cellular development. Analyzing the gene profile of root apex in diverse environments is important and challenging especially when the samples are limiting and precious such as in spaceflight. The feasibility of using tiny root sections for transcriptome analysis was examined in this study. To understand the gene expression profiles of the root apex Arabidopsis thaliana Col-0 roots were sectioned into Zone-I (0.5 mm root cap and meristematic zone) and Zone-II (1.5 mm transition elongation and growth terminating zone). Gene expression was analyzed using microarray and RNA seq. Both the techniques arrays and RNA-Seq identified 4180 common genes as differentially expressed (with > two-fold changes) between the zones. In addition 771 unique genes and 19 novel TARs were identified by RNA-Seq as differentially expressed which were not detected in the arrays. Single root tip zones can be used for full transcriptome analysis; further the root apex zones are functionally very distinct from each other. RNA-Seq provided novel information about the transcripts compared to the arrays. These data will help optimize transcriptome techniques for dealing with small rare samples.
A whole-genome microarray study of Arabidopsis thaliana cell cultures exposed to microgravity for 5 days on board of Shenzhou 8
Arabidopsis thaliana wild type cell cultures were exposed to a 5-day space flight onboard of Shenzhou 8 to identify microgravity and space effect related gene expression.
Microarray Profile of Gene Expression during Osteoclast Differentiation in Modeled Microgravity
Microgravity leads to a 10-15% loss of bone mass in astronauts during space flight. Osteoclast is the multinucleated bone resorbing cell. In this study we used NASA developed ground based Rotary Wall Vessel Bioreactor (RWV) Rotary Cell Culture System (RCCS) to simulate microgravity (uXg) conditions and demonstrated a significant increase (2-fold) in osteoclastogenesis compared to ground based control (Xg) mouse bone marrow cultures. We further determined the gene expression profiling of RAW 264.7 osteoclast progenitor cells in microgravity by agilent microarray analysis. Gene expression pattern was functional group clustered by transcriptome analysis using gene ontology tree machine (GOTM) for cell proliferation/survival differentiation and function. We confirm the microgravity modulated gene expression critical for osteoclast differentiation by real-time RT-PCR and Western blot analysis in murine bone marrow cultures. We identify transcription factors such as c-Jun c-Fos PU-1 critical for osteoclast differentiation is up-regulated in microgravity conditions. In addition microgravity resulted in 2.3 and 2.0-fold increase in the level of cathepsin K and MMP-9 matrix metalloproteinase expression in preosteoclast cells involved in the bone resorption process respectively. We also demonstrate a significant increase in the expression levels of M-CSF receptor c-Fms and PLCy2 and S100A8 molecules that play an important role in Ca2+ signaling essential for osteoclast function. Further microgravity stimulated preosteoclast cells showed elevated cytosolic Ca2+ levels compared to ground based control cells. Thus microgravity regulated gene expression profiling in preosteoclast cells provide new insights in to molecular mechanisms and therapeutic targets of osteoclast differentiation/activation responsible for bone loss and fracture risk in astronauts during space flight mission. Microgravity associated with space flight is a challenge for normal bone homeostasis. Astronauts experience 10-15% bone loss during a space flight mission. We aimed to determine the effect of simulated microgravity on osteoclast preosteoclasts cells. RAW264.7 cells (1.5 x 106 /ml) were loaded in RCCS with DMEM containing 10% FBS for 24 h. The cells were stimulated with RANKL (80ng/ml) for 24 h to obtain preosteoclasts in parallel with ground based control cells. Total RNA was isolated using RNAzol reagent (Biotecx Labs Houston TX) from control (Xg) and microgravity (uXg) subjected cells and hybridized with Agilent whole mouse genome 4x44K array system. Slides were washed and scanned on an Agilent G2565 microarray scanner. Data obtained were analyzed with Agilent feature extraction and GeneSpring GX v7.3.1 software packages (Genus biosystem Inc. Northbrook IL USA).
Interactions between Saccharomyces cerevisiae WW domains and proteins discovered using protein microarrays
GEO Series GSE3758. Saccharomyces cerevisiae. 24 samples. Type: Protein profiling by protein array.
Methylation microarray data related to TIME-Seq benchmarking
GEO Series GSE245628. Homo sapiens. 24 samples. Type: Methylation profiling by array.
Whole-genome microarray analysis of human skin fibroblasts
GEO Series GSE69447. Homo sapiens. 9 samples. Type: Expression profiling by array.
THOC2 RNAi microarray in A375 cell line
GEO Series GSE109497. Homo sapiens. 2 samples. Type: Expression profiling by array.
Differentially Expressed MiRNAs in Epithelial Ovarian Cancer Tissue and Serum Samples by MiRNA Microarray Analysis
GEO Series GSE216150. Homo sapiens. 32 samples. Type: Non-coding RNA profiling by array.
Microarray analysis of rice plants fumigated with ozone
GEO Series GSE11157. Oryza sativa Japonica Group; Oryza sativa. 12 samples. Type: Expression profiling by array.
Differential adipose tissue gene expression profiles in abacavir treated patients that may contribute to cardiovascular risk: a microarray study
GEO Series GSE62117. Homo sapiens. 102 samples. Type: Expression profiling by array.
Microarray analysis of genes impacted by 5 day knockdown of SLC24A5 in normal human melanocytes.
GEO Series GSE21565. Homo sapiens. 30 samples. Type: Expression profiling by array.
Microarray analysis of heart gene expression in wild type and JMJD2A heart specific transgenic mice after sham and thoracic aortic constriction surgery
GEO Series GSE27689. Mus musculus. 6 samples. Type: Expression profiling by array.
Analysis of the genome content of Lactococcus garvieae by genomic interspecies microarray hybridization
GEO Series GSE19005. Streptococcus pneumoniae; Lactococcus lactis subsp. lactis Il1403; Lactococcus garvieae; Lactococcus lactis subsp. lactis. 32 samples. Type: Genome variation profiling by array.
Microarray analysis of xenograft model to characterize the CNS leukemia
GEO Series GSE81517. Homo sapiens. 10 samples. Type: Expression profiling by array.
Data integration from two microarray platforms identifies genetic inactivation of RIC8A in a breast cancer cell line
GEO Series GSE15477. Homo sapiens. 24 samples. Type: Expression profiling by array; Genome variation profiling by array.
Mapping the C. elegans non-coding transcriptome with a whole genome tiling microarray
GEO Series GSE8543. Caenorhabditis elegans. 3 samples. Type: Expression profiling by genome tiling array.
The Transcription factor Zeb2 ia required to maintain tissue-specific identities of macrophages [microarray]
GEO Series GSE117080. Mus musculus. 7 samples. Type: Expression profiling by array; Third-party reanalysis.
Microarray analysis of mouse gene expression in metronomic cyclophosphamide-treated human glioma U251 xenografts implanted in scid mice
GEO Series GSE60866. Homo sapiens; Mus musculus. 2 samples. Type: Expression profiling by array.
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International Brain Laboratory public data
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OpenNeuro
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