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‘one-colour microarray-based gene expression analysis’ protocol version 6.0  (Agilent technologies)


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    Agilent technologies ‘one-colour microarray-based gene expression analysis’ protocol version 6.0
    ‘One Colour Microarray Based Gene Expression Analysis’ Protocol Version 6.0, supplied by Agilent technologies, 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-based+gene+expression+analysis+protocol/pm24747108-81-2-10
    Average 90 stars, based on 1 article reviews
    ‘one-colour microarray-based gene expression analysis’ protocol version 6.0 - by Bioz Stars, 2026-10
    90/100 stars

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    other:

    Article Title: LINC01101 and LINC00277 expression levels as novel factors in HPV-induced cervical neoplasia.
    Article Snippet: The microarray experiment was performed using One-colour Microarray-based Gene Expression (Agilent Technologies Inc.) according to manufacturer protocol and guidelines and scanned using Agilent Microarray Scanner System (Agilent Technologies Inc.).

    Article Title: Cellular and molecular responses of adult zebrafish after exposure to CuO nanoparticles or ionic copper.
    Article Snippet: Due to their antimicrobial, electrical and magnetic properties, copper nanoparticles (NPs) are suitable for a vast array of applications.. Copper can be toxic to biota, making it necessary to assess the potential hazard of copper nanomaterials.. Zebrafish (Danio rerio) were exposed to 10 μg Cu/L of CuO NPs of ≈100 nm (CuO-poly) or ionic copper to compare the effects provoked after 3 and 21 days of exposure and at 6 months post-exposure (mpe).

    Article Title: Metabolism of biosynthetic oligosaccharides by human-derived Bifidobacterium breve UCC2003 and Bifidobacterium longum NCIMB 8809.
    Article Snippet: Labelled cDNA was hybridized using the Agilent Gene Expression hybridization kit (part number 5188-5242) as described in the Agilent Two-Colour Microarray-Based Gene Expression Analysis v4.0 manual (publication number G4140-90050).

    Gene Expression:

    Article Title: Influence of cell cycle on responses of MCF-7 cells to benzo[a]pyrene
    Article Snippet: .. Gene expression analysis was carried out using the Agilent two-colour microarray-based gene expression analysis (Agilent Technologies, UK), which uses cyanine 3 (Cy3)- and cyanine 5 (Cy5)-labelled targets to measure gene expression in experimental and control samples. .. Agilent Human 4 × 44K Genome-wide arrays were used and the reference design was applied, whereby a Universal Human Reference RNA (Stratagene, La Jolla, USA) was hybridised to every sample.

    Article Title: Time‐course expression QTL‐atlas of the global transcriptional response of wheat to Fusarium graminearum
    Article Snippet: RNA was extracted from 100 mg of ground tissue comprising samples from five pooled heads using the RNeasy plant mini kit (Qiagen, Venlo, The Netherlands) and checked on a Bio‐Rad Experion automated electrophoresis unit (Hercules, CA). .. Gene expression profiles were captured using a custom‐built 8 × 60 K one‐colour microarray design based on the Agilent microarray platform (design ID 031677, Agilent, Santa Clara, CA). ..

    Article Title: Profiling of jejunum inflammatory gene expression during murine eimeriosis.
    Article Snippet: To understand the host-parasite relationship during coccidiosis it is necessary to identify the transcriptional profile of the local host.. In this study, gene profiling in the mouse jejunum due to infection with Eimeria papillatawas investigated using Agilent microarray technology.. On day 5 post-infection, the characterization of infected and non-infected mice jejunum transcriptional response was compared.

    Microarray:

    Article Title: Influence of cell cycle on responses of MCF-7 cells to benzo[a]pyrene
    Article Snippet: .. Gene expression analysis was carried out using the Agilent two-colour microarray-based gene expression analysis (Agilent Technologies, UK), which uses cyanine 3 (Cy3)- and cyanine 5 (Cy5)-labelled targets to measure gene expression in experimental and control samples. .. Agilent Human 4 × 44K Genome-wide arrays were used and the reference design was applied, whereby a Universal Human Reference RNA (Stratagene, La Jolla, USA) was hybridised to every sample.

    Article Title: Time‐course expression QTL‐atlas of the global transcriptional response of wheat to Fusarium graminearum
    Article Snippet: RNA was extracted from 100 mg of ground tissue comprising samples from five pooled heads using the RNeasy plant mini kit (Qiagen, Venlo, The Netherlands) and checked on a Bio‐Rad Experion automated electrophoresis unit (Hercules, CA). .. Gene expression profiles were captured using a custom‐built 8 × 60 K one‐colour microarray design based on the Agilent microarray platform (design ID 031677, Agilent, Santa Clara, CA). ..

    Article Title: What makes turnips: anatomy, physiology and transcriptome during early stages of its hypocotyl-tuber development
    Article Snippet: .. A custom microarray based on the two-colour Agilent microarray platform was designed using the reference genome sequence of B. rapa cv. ..


    Article Title: Profiling of jejunum inflammatory gene expression during murine eimeriosis.
    Article Snippet: To understand the host-parasite relationship during coccidiosis it is necessary to identify the transcriptional profile of the local host.. In this study, gene profiling in the mouse jejunum due to infection with Eimeria papillatawas investigated using Agilent microarray technology.. On day 5 post-infection, the characterization of infected and non-infected mice jejunum transcriptional response was compared.

    Control:

    Article Title: Influence of cell cycle on responses of MCF-7 cells to benzo[a]pyrene
    Article Snippet: .. Gene expression analysis was carried out using the Agilent two-colour microarray-based gene expression analysis (Agilent Technologies, UK), which uses cyanine 3 (Cy3)- and cyanine 5 (Cy5)-labelled targets to measure gene expression in experimental and control samples. .. Agilent Human 4 × 44K Genome-wide arrays were used and the reference design was applied, whereby a Universal Human Reference RNA (Stratagene, La Jolla, USA) was hybridised to every sample.

    Sequencing:

    Article Title: What makes turnips: anatomy, physiology and transcriptome during early stages of its hypocotyl-tuber development
    Article Snippet: .. A custom microarray based on the two-colour Agilent microarray platform was designed using the reference genome sequence of B. rapa cv. ..

    Infection:

    Article Title: Profiling of jejunum inflammatory gene expression during murine eimeriosis.
    Article Snippet: To understand the host-parasite relationship during coccidiosis it is necessary to identify the transcriptional profile of the local host.. In this study, gene profiling in the mouse jejunum due to infection with Eimeria papillatawas investigated using Agilent microarray technology.. On day 5 post-infection, the characterization of infected and non-infected mice jejunum transcriptional response was compared.



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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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    Image Search Results


    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

    Expression Profiles of differently expressed lncRNAs and mRNAs screened by microarray analysis of fibroblast-like synoviocytes (FLSs) samples from rheumatoid arthritis (RA) group ( n = 3) and control group ( n = 3). With the threshold of fold changes > 1.5 and P < 0.05, (a) the Volcano Plot showed differentially expressed lncRNAs between RA-FLSs and HC-FLSs and (b) the Scatter Plot showed differentially expressed mRNAs. (c) The Heat Map showing distinguishable lncRNA expression profiles with fold changes > 2.5 and P < 0.05.

    Journal: EBioMedicine

    Article Title: LncRNA PICSAR promotes cell proliferation, migration and invasion of fibroblast-like synoviocytes by sponging miRNA-4701-5p in rheumatoid arthritis

    doi: 10.1016/j.ebiom.2019.11.024

    Figure Lengend Snippet: Expression Profiles of differently expressed lncRNAs and mRNAs screened by microarray analysis of fibroblast-like synoviocytes (FLSs) samples from rheumatoid arthritis (RA) group ( n = 3) and control group ( n = 3). With the threshold of fold changes > 1.5 and P < 0.05, (a) the Volcano Plot showed differentially expressed lncRNAs between RA-FLSs and HC-FLSs and (b) the Scatter Plot showed differentially expressed mRNAs. (c) The Heat Map showing distinguishable lncRNA expression profiles with fold changes > 2.5 and P < 0.05.

    Article Snippet: Sample labeling and array hybridization were performed according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol (Agilent Technology) with minor modifications.

    Techniques: Expressing, Microarray

    Verification of lncRNAs and effect of lncRNA PICSAR suppression on the proliferation of rheumatoid arthritis (RA) fibroblast-like synoviocytes (FLSs). (a) Quantitative real-time reverse transcription PCR (qRT-PCR) verified 5 selected lncRNAs with the highest up-regulated differential expression according to the microarray analysis. LncRNA PICSAR is the most significantly up-regulated in RA-FLSs. (b) LncRNA PICSAR was also over-expressed in the synovial fluid of RA patients compared with the control group by qPCR. (c) The inhibition efficiency of specific PICSAR small interference RNA (siRNA) in RA-FLSs was detected by qRT-PCR. (d) Compared with negative control, the expression of p-ERK1/2 in the total ERK1/2 protein was significantly decreased in the RA-FLSs after transfection. (e) PICSAR knockdown in RA-FLSs decreases cell proliferation assessed by a Cell Counting Kit-8 assay. The absorbance at 450 nm wavelength of PICSAR-siRNA group were significantly reduced at the indicated time points compared to the other two control groups. All the results were presented as the mean ± standard deviation (S.D.) based on ≥ 3 replicates involving ≥ 3 samples. * P < 0.05, ** P < 0.01, and *** P < 0.001 versus control groups.

    Journal: EBioMedicine

    Article Title: LncRNA PICSAR promotes cell proliferation, migration and invasion of fibroblast-like synoviocytes by sponging miRNA-4701-5p in rheumatoid arthritis

    doi: 10.1016/j.ebiom.2019.11.024

    Figure Lengend Snippet: Verification of lncRNAs and effect of lncRNA PICSAR suppression on the proliferation of rheumatoid arthritis (RA) fibroblast-like synoviocytes (FLSs). (a) Quantitative real-time reverse transcription PCR (qRT-PCR) verified 5 selected lncRNAs with the highest up-regulated differential expression according to the microarray analysis. LncRNA PICSAR is the most significantly up-regulated in RA-FLSs. (b) LncRNA PICSAR was also over-expressed in the synovial fluid of RA patients compared with the control group by qPCR. (c) The inhibition efficiency of specific PICSAR small interference RNA (siRNA) in RA-FLSs was detected by qRT-PCR. (d) Compared with negative control, the expression of p-ERK1/2 in the total ERK1/2 protein was significantly decreased in the RA-FLSs after transfection. (e) PICSAR knockdown in RA-FLSs decreases cell proliferation assessed by a Cell Counting Kit-8 assay. The absorbance at 450 nm wavelength of PICSAR-siRNA group were significantly reduced at the indicated time points compared to the other two control groups. All the results were presented as the mean ± standard deviation (S.D.) based on ≥ 3 replicates involving ≥ 3 samples. * P < 0.05, ** P < 0.01, and *** P < 0.001 versus control groups.

    Article Snippet: Sample labeling and array hybridization were performed according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol (Agilent Technology) with minor modifications.

    Techniques: Quantitative RT-PCR, Expressing, Microarray, Inhibition, Negative Control, Transfection, Cell Counting, Standard Deviation