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microarray hybridization protocol  (Arraystar inc)

 
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    Arraystar inc microarray hybridization protocol
    Microarray Hybridization Protocol, supplied by Arraystar inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/microarray+protocols/microarray+hybridization+protocol/pm40158127-80-4-13
    Average 90 stars, based on 1 article reviews
    microarray hybridization protocol - by Bioz Stars, 2026-11
    90/100 stars

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    other:

    Article Title: Brucella -Induced Downregulation of lncRNA Gm28309 Triggers Macrophages Inflammatory Response Through the miR-3068-5p/NF-κB Pathway
    Article Snippet: Microarray hybridization was then conducted according to the standard Arraystar protocols with minor modifications using the Human LncRNA Microarray V3.0 (Arraystar, Rockville, MD, USA).

    Article Title: Novel insight into circular RNA HECTD1 in astrocyte activation via autophagy by targeting MIR142 -TIPARP: implications for cerebral ischemic stroke
    Article Snippet: Sample preparation and microarray hybridization were performed based on the standard protocols of the Arraystar microarray (Arraystar, AS-S-CR-M-1.0 and AS-LNC-M-V3.0).

    Microarray:

    Article Title: An interaction between eIF4A3 and eIF3g drives the internal initiation of translation
    Article Snippet: Each fraction was collected using a Foxy Jr Density Gradient System (Teledyne ISCO) according to the A 254 . .. For the transcriptome-wide identification of circRNAs that associate with polysomes in an eIF4A3-dependent manner, circRNA microarray analysis was performed using either polysomal or subpolysomal fractions from HeLa cells depleted or not depleted of eIF4A3, following Arraystar's standard protocols for the Human Circular RNA Array (8 × 15 K; AS-S-CR-H-V2.0, Arraystar). .. For ribosome run-off experiments, the cells were treated with 100 μg/ml puromycin (Puro; MilliporeSigma) before harvesting.



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    Significant genes of each signature were represented according to their gene function and specific role in the cell, localization and type of interaction between them. Node border color refers to cell localization, node shape to general function and node color to specific function in the cell. Edge color refers to physical interactions, biochemical interactions or to both; when not specified, a functional interaction is assumed. Upstream arrow (red) means up-regulation versus the other categories, and downstream arrow (blue) means down-regulation versus the other categories. <t>Microarray</t> data values represented here are shown in and .
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    <t>Microarray</t> analysis of hUCB-MSCs from the normal and preeclampsia groups. (a) The scatter plot and MA plot show the DEGs between N3 and P3 cells. In the scatter plot, the median line indicates no difference in signal intensity between the two groups. The upper gray line indicates a twofold higher signal intensity, and the lower gray line indicates a twofold lower signal intensity for hUCB-MSCs from the preeclampsia group as compared to the normal group. In the MA plot, the median line represents N signal/P signal = 1. The upper gray line represents N signal/P signal = 2, and the lower gray line represents N signal/P signal = 0.5. N3: hUCB-MSCs at passage 3, normal pregnancy; P3: hUCB-MSCs at passage 3, preeclampsia. (b, c) Hierarchical cluster analysis of differentially expressed genes (DEGs) between N3 and P3 cells. Red represents upregulated gene clusters, and green represents downregulated gene clusters. The panels show genes up- or downregulated twofold (b) or fourfold (c) in P3 (versus N3) cells. N3: hUCB-MSCs at passage 3, normal pregnancy; P3: early hUCB-MSCs at passage 3, preeclampsia.
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    <t>Microarray</t> analysis of hUCB-MSCs from the normal and preeclampsia groups. (a) The scatter plot and MA plot show the DEGs between N3 and P3 cells. In the scatter plot, the median line indicates no difference in signal intensity between the two groups. The upper gray line indicates a twofold higher signal intensity, and the lower gray line indicates a twofold lower signal intensity for hUCB-MSCs from the preeclampsia group as compared to the normal group. In the MA plot, the median line represents N signal/P signal = 1. The upper gray line represents N signal/P signal = 2, and the lower gray line represents N signal/P signal = 0.5. N3: hUCB-MSCs at passage 3, normal pregnancy; P3: hUCB-MSCs at passage 3, preeclampsia. (b, c) Hierarchical cluster analysis of differentially expressed genes (DEGs) between N3 and P3 cells. Red represents upregulated gene clusters, and green represents downregulated gene clusters. The panels show genes up- or downregulated twofold (b) or fourfold (c) in P3 (versus N3) cells. N3: hUCB-MSCs at passage 3, normal pregnancy; P3: early hUCB-MSCs at passage 3, preeclampsia.
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    Comparison of mRNA expression in seven candidate genes between TPCH test (n = 30, microarray) and training set (n = 62 qRT-PCR data), with two public microarray datasets of lung tissue samples (Spira et al , , n = 34; and Golpon et al , n = 10) . Fold change represents mean expression ratio of moderate versus mild emphysema (TPCH training set), severe/mild emphysema versus normal (Spira et al ), or severe emphysema versus normal samples (Golpon et al ). The absence of a bar indicates the gene was not represented on the microarray platform.

    Journal: Respiratory Research

    Article Title: Expression profiling identifies genes involved in emphysema severity

    doi: 10.1186/1465-9921-10-81

    Figure Lengend Snippet: Comparison of mRNA expression in seven candidate genes between TPCH test (n = 30, microarray) and training set (n = 62 qRT-PCR data), with two public microarray datasets of lung tissue samples (Spira et al , , n = 34; and Golpon et al , n = 10) . Fold change represents mean expression ratio of moderate versus mild emphysema (TPCH training set), severe/mild emphysema versus normal (Spira et al ), or severe emphysema versus normal samples (Golpon et al ). The absence of a bar indicates the gene was not represented on the microarray platform.

    Article Snippet: Lung and universal reference RNA (Stratagene, La Jolla, CA, USA) was reverse transcribed, labeled with Cy5 and Cy3 (Amersham/GE Healthcare, Buckinghamshire, England) respectively and co-hybridized onto a 22K Operon V2.1 Human Genome Oligo Microarray chip http://www.operon.com containing 21,329 70 mer probes representing ~14,200 named transcripts printed by the British Columbia Gene Array Facility http://www.microarray.prostatecentre.com .

    Techniques: Expressing, Microarray, Quantitative RT-PCR

    Significant genes of each signature were represented according to their gene function and specific role in the cell, localization and type of interaction between them. Node border color refers to cell localization, node shape to general function and node color to specific function in the cell. Edge color refers to physical interactions, biochemical interactions or to both; when not specified, a functional interaction is assumed. Upstream arrow (red) means up-regulation versus the other categories, and downstream arrow (blue) means down-regulation versus the other categories. Microarray data values represented here are shown in and .

    Journal: PLoS ONE

    Article Title: Defining the Genomic Signature of Totipotency and Pluripotency during Early Human Development

    doi: 10.1371/journal.pone.0062135

    Figure Lengend Snippet: Significant genes of each signature were represented according to their gene function and specific role in the cell, localization and type of interaction between them. Node border color refers to cell localization, node shape to general function and node color to specific function in the cell. Edge color refers to physical interactions, biochemical interactions or to both; when not specified, a functional interaction is assumed. Upstream arrow (red) means up-regulation versus the other categories, and downstream arrow (blue) means down-regulation versus the other categories. Microarray data values represented here are shown in and .

    Article Snippet: Following ‘One-Color Microarray-Based Gene Expression Analysis’ protocol Version 5.7 (Agilent p/n G4140-90040), 3 µg of labelled cRNA was hybridised with the Whole Human Genome Oligo Microarray Kit (Agilent p/n G2519F-014850) containing 41,000+ unique human genes and transcripts.

    Techniques: Functional Assay, Microarray

    Microarray analysis of hUCB-MSCs from the normal and preeclampsia groups. (a) The scatter plot and MA plot show the DEGs between N3 and P3 cells. In the scatter plot, the median line indicates no difference in signal intensity between the two groups. The upper gray line indicates a twofold higher signal intensity, and the lower gray line indicates a twofold lower signal intensity for hUCB-MSCs from the preeclampsia group as compared to the normal group. In the MA plot, the median line represents N signal/P signal = 1. The upper gray line represents N signal/P signal = 2, and the lower gray line represents N signal/P signal = 0.5. N3: hUCB-MSCs at passage 3, normal pregnancy; P3: hUCB-MSCs at passage 3, preeclampsia. (b, c) Hierarchical cluster analysis of differentially expressed genes (DEGs) between N3 and P3 cells. Red represents upregulated gene clusters, and green represents downregulated gene clusters. The panels show genes up- or downregulated twofold (b) or fourfold (c) in P3 (versus N3) cells. N3: hUCB-MSCs at passage 3, normal pregnancy; P3: early hUCB-MSCs at passage 3, preeclampsia.

    Journal: Stem Cells International

    Article Title: Comparative Analysis of Human Umbilical Cord Blood-Derived Mesenchymal Stem Cells between Preeclampsia and Normal Pregnant Women

    doi: 10.1155/2020/8403192

    Figure Lengend Snippet: Microarray analysis of hUCB-MSCs from the normal and preeclampsia groups. (a) The scatter plot and MA plot show the DEGs between N3 and P3 cells. In the scatter plot, the median line indicates no difference in signal intensity between the two groups. The upper gray line indicates a twofold higher signal intensity, and the lower gray line indicates a twofold lower signal intensity for hUCB-MSCs from the preeclampsia group as compared to the normal group. In the MA plot, the median line represents N signal/P signal = 1. The upper gray line represents N signal/P signal = 2, and the lower gray line represents N signal/P signal = 0.5. N3: hUCB-MSCs at passage 3, normal pregnancy; P3: hUCB-MSCs at passage 3, preeclampsia. (b, c) Hierarchical cluster analysis of differentially expressed genes (DEGs) between N3 and P3 cells. Red represents upregulated gene clusters, and green represents downregulated gene clusters. The panels show genes up- or downregulated twofold (b) or fourfold (c) in P3 (versus N3) cells. N3: hUCB-MSCs at passage 3, normal pregnancy; P3: early hUCB-MSCs at passage 3, preeclampsia.

    Article Snippet: The standard protocol used for sample preparation and microarray processing is available from Agilent Technologies.

    Techniques: Microarray

    Network analysis of senescence-related differentially expressed genes (DEGs). Genes represented by a large circle are senescence-related differentially expressed genes (DEGs) obtained from microarray analysis. Red ones are genes related with senescence as well as cell aging. FDR: false discovery rate.

    Journal: Stem Cells International

    Article Title: Comparative Analysis of Human Umbilical Cord Blood-Derived Mesenchymal Stem Cells between Preeclampsia and Normal Pregnant Women

    doi: 10.1155/2020/8403192

    Figure Lengend Snippet: Network analysis of senescence-related differentially expressed genes (DEGs). Genes represented by a large circle are senescence-related differentially expressed genes (DEGs) obtained from microarray analysis. Red ones are genes related with senescence as well as cell aging. FDR: false discovery rate.

    Article Snippet: The standard protocol used for sample preparation and microarray processing is available from Agilent Technologies.

    Techniques: Microarray