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3,272
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3,272 results for “microarray”
Microarray expression study of histological subtypes of intestinal metaplasia that progress to gastric cancer
GEO Series GSE78523. Homo sapiens. 45 samples. Type: Expression profiling by array.
Comparing RNA-Seq and microarray gene expression data in two zones of the Arabidopsis root apex relevant to spaceflight
GEO Series GSE115555. Arabidopsis thaliana. 12 samples. Type: Expression profiling by array; Expression profiling by high throughput sequencing.
Gain-of-Function p53 Protein Transferred via Small Extracellular Vesicles Promotes Conversion of Fibroblasts to a Cancer-Associated Phenotype [microarray]
GEO Series GSE164248. Homo sapiens. 6 samples. Type: Expression profiling by array.
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.
Comparing RNA-Seq and microarray gene expression data in two zones of the Arabidopsis root apex relevant to spaceflight.
Premise of the study: The root apex is an important region involved in environmental sensing, but comprises a very small part of the root. Obtaining root apex transcriptomes is therefore challenging when the samples are limited. The feasibility of using tiny root sections for transcriptome analysis was examined, comparing RNA sequencing (RNA-Seq) to microarrays in characterizing genes that are relevant to spaceflight.Methods:Arabidopsis thaliana Columbia ecotype (Col-0) roots were sectioned into Zone 1 (0.5 mm; root cap and meristematic zone) and Zone 2 (1.5 mm; transition, elongation, and growth-terminating zone). Differential gene expression in each was compared.Results: Both microarrays and RNA-Seq proved applicable to the small samples. A total of 4180 genes were differentially expressed (with fold changes of 2 or greater) between Zone 1 and Zone 2. In addition, 771 unique genes and 19 novel transcriptionally active regions were identified by RNA-Seq that were not detected in microarrays. However, microarrays detected spaceflight-relevant genes that were missed in RNA-Seq. Discussion: Single root tip subsections can be used for transcriptome analysis using either RNA-Seq or microarrays. Both RNA-Seq and microarrays provided novel information. These data suggest that techniques for dealing with small, rare samples from spaceflight can be further enhanced, and that RNA-Seq may miss some spaceflight-relevant changes in 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).
Microarray Studies in the Laser Capture Microdissected SNc after a Single Administration of MPTP in Common Marmosets
GEO Series GSE5176. Callithrix jacchus; Homo sapiens. 4 samples. Type: Expression profiling by array.
Microarray-based Characterization of Microbial Community Functional Structure and Heterogeneity Associated with Acid Mine Drainages
GEO Series GSE27542. unidentified microorganism. 9 samples. Type: Other.
Microarray expression data from WT and Irf4-/- CD4+ T cells after activation
GEO Series GSE83283. Mus musculus. 4 samples. Type: Expression profiling by array.
Agilent zebrafish V3 array 4´44K microarray-Aflatoxin B1 treated with 6-48 hpf zebrafish embryos
GEO Series GSE121125. Danio rerio. 2 samples. Type: Expression profiling by array.
Microarray expression profile and functional analysis of circular RNAs in osteosarcoma
GEO Series GSE96964. Homo sapiens. 8 samples. Type: Non-coding RNA profiling by array.
Microarray analysis of Japanese encephalitis virus infected Neuro2a cells
GEO Series GSE20135. Mus musculus. 3 samples. Type: Expression profiling by array.
Microarray expression profile analysis of lncRNAs in human Pancreatic Ductal Adenocarcinoma
GEO Series GSE130221. Homo sapiens. 12 samples. Type: Expression profiling by array; Non-coding RNA profiling by array.
Ecotoxicogenomics: interlaboratory comparability of microarray data
GEO Series GSE64213. Eohaustorius estuarius. 176 samples. Type: Expression profiling by array.
Microarray of wild type, Shp2 knock-out, Pten knock-out and double knock-out erythroblasts
GEO Series GSE48477. Mus musculus. 8 samples. Type: Expression profiling by array.
Germinal Center T follicular helper (GC-Tfh) cell impairment in chronic HIV infection involves c-Maf signaling [microarray]
GEO Series GSE175728. Homo sapiens. 20 samples. Type: Expression profiling by array.
T-C cell mouse microarray
GEO Series GSE60536. Mus musculus. 10 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Microarray analysis of the deletion of transcription regulator SurR in the hyperthermophilic archaeon Thermococcus kodakarensis
GEO Series GSE71984. Thermococcus kodakarensis. 2 samples. Type: Expression profiling by array.
cDNA microarray data after ATP treatment
GEO Series GSE45645. Homo sapiens. 6 samples. Type: Expression profiling by array.
Use of CGH microarrays to identify strain variable genomic regions in C. botulinum ATCC 3502
GEO Series GSE16010. Clostridium botulinum; Clostridium botulinum A str. ATCC 3502. 10 samples. Type: Genome variation profiling by genome tiling array.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.