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one-color microarray-based gene expression analysis protocol  (Agilent technologies)


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    Structured Review

    Agilent technologies one-color microarray-based gene expression analysis protocol
    Expression Profiles of differently expressed lncRNAs and mRNAs screened by <t>microarray</t> 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.
    One Color Microarray Based Gene Expression Analysis Protocol, 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/pmc06921299-55-11-10
    Average 90 stars, based on 1 article reviews
    one-color microarray-based gene expression analysis protocol - by Bioz Stars, 2026-10
    90/100 stars

    Images

    1) Product Images from "LncRNA PICSAR promotes cell proliferation, migration and invasion of fibroblast-like synoviocytes by sponging miRNA-4701-5p in rheumatoid arthritis"

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

    Journal: EBioMedicine

    doi: 10.1016/j.ebiom.2019.11.024

    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.
    Figure Legend 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.

    Techniques Used: 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.
    Figure Legend 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.

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

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    Binding Assay:

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    Article Title: Comparison of host cell gene expression in cowpox, monkeypox or vaccinia virus-infected cells reveals virus-specific regulation of immune response genes
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    Amplification:

    Article Title: Increased Endoplasmic Reticulum Stress Response Is Involved in Clopidogrel-Induced Apoptosis of Gastric Epithelial Cells
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    Article Title: Identification of Novel Low-Dose Bisphenol A Targets in Human Foreskin Fibroblast Cells Derived from Hypospadias Patients
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    Derivative Assay:

    Article Title: Increased Endoplasmic Reticulum Stress Response Is Involved in Clopidogrel-Induced Apoptosis of Gastric Epithelial Cells
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    Article Title: Increased Endoplasmic Reticulum Stress Response Is Involved in Clopidogrel-Induced Apoptosis of Gastric Epithelial Cells
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    Article Title: Identification of Novel Low-Dose Bisphenol A Targets in Human Foreskin Fibroblast Cells Derived from Hypospadias Patients
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    Variant Assay:

    Article Title: Increased Endoplasmic Reticulum Stress Response Is Involved in Clopidogrel-Induced Apoptosis of Gastric Epithelial Cells
    Article Snippet: In order to further delineate how clopidogrel could induce GES-1 cell apoptosis, we used an extensively recognized Agilent one-color microarray-based gene expression technique to measure altered mRNA expression in clopidogrel-treated gastric epithelial cells as compared with vehicle-treated cells and confirmed several most important genes involved.

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    Article Snippet: To better understand cellular responses to clopidogrel and potential signaling pathways activated by clopidogrel, the differentially expressed genes were determined in the absence or presence of clopidogrel treatment by the Agilent one-color microarray-based gene expression profiling.

    Article Title: Identification of Novel Low-Dose Bisphenol A Targets in Human Foreskin Fibroblast Cells Derived from Hypospadias Patients
    Article Snippet: RNA was amplified into cRNA and labeled according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol (Agilent Technologies).

    Article Title: Intratracheal Transplantation of Amnion-Derived Mesenchymal Stem Cells Ameliorates Hyperoxia-Induced Neonatal Hyperoxic Lung Injury via Aminoacyl-Peptide Hydrolase
    Article Snippet: RNA labeling and hybridization were performed according to the Agilent One-Color Microarray-Based Gene Ex pression Analysis protocol (Agilent Technologies, Santa Clara, CA, USA).

    Article Title: Development and validation of a gene expression oligo microarray for the gilthead sea bream ( Sparus aurata )
    Article Snippet: Sample labelling and hybridization were performed according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol; more details of the followed procedure can be found in Additional file .

    Article Title: Evaluation of phenoxybenzamine in the CFA model of pain following gene expression studies and connectivity mapping
    Article Snippet: Sample preparation, hybridization, wash, scanning and feature extraction was performed according to the standard protocol, 'One-Color Microarray-Based Gene Expression Analysis v.5.7 (P/N G4140-90040)', by Agilent Technologies.

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    Article Snippet: Sample labelling was performed as detailed in the Agilent “One-Color Microarray-Based Gene Expression Analysis” protocol (version 5.7, part number G4140-90040).

    Article Title: Development of an oligo DNA microarray for the European sea bass and its application to expression profiling of jaw deformity
    Article Snippet: Sample labeling and hybridization were performed according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol.

    Sample Prep:

    Article Title: Increased Endoplasmic Reticulum Stress Response Is Involved in Clopidogrel-Induced Apoptosis of Gastric Epithelial Cells
    Article Snippet: In order to further delineate how clopidogrel could induce GES-1 cell apoptosis, we used an extensively recognized Agilent one-color microarray-based gene expression technique to measure altered mRNA expression in clopidogrel-treated gastric epithelial cells as compared with vehicle-treated cells and confirmed several most important genes involved.

    Article Title: Increased Endoplasmic Reticulum Stress Response Is Involved in Clopidogrel-Induced Apoptosis of Gastric Epithelial Cells
    Article Snippet: To better understand cellular responses to clopidogrel and potential signaling pathways activated by clopidogrel, the differentially expressed genes were determined in the absence or presence of clopidogrel treatment by the Agilent one-color microarray-based gene expression profiling.

    Article Title: Identification of Novel Low-Dose Bisphenol A Targets in Human Foreskin Fibroblast Cells Derived from Hypospadias Patients
    Article Snippet: RNA was amplified into cRNA and labeled according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol (Agilent Technologies).

    Article Title: Intratracheal Transplantation of Amnion-Derived Mesenchymal Stem Cells Ameliorates Hyperoxia-Induced Neonatal Hyperoxic Lung Injury via Aminoacyl-Peptide Hydrolase
    Article Snippet: RNA labeling and hybridization were performed according to the Agilent One-Color Microarray-Based Gene Ex pression Analysis protocol (Agilent Technologies, Santa Clara, CA, USA).

    Article Title: Development and validation of a gene expression oligo microarray for the gilthead sea bream ( Sparus aurata )
    Article Snippet: Sample labelling and hybridization were performed according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol; more details of the followed procedure can be found in Additional file .

    Article Title: Evaluation of phenoxybenzamine in the CFA model of pain following gene expression studies and connectivity mapping
    Article Snippet: Sample preparation, hybridization, wash, scanning and feature extraction was performed according to the standard protocol, 'One-Color Microarray-Based Gene Expression Analysis v.5.7 (P/N G4140-90040)', by Agilent Technologies.

    Article Title: Comparison of host cell gene expression in cowpox, monkeypox or vaccinia virus-infected cells reveals virus-specific regulation of immune response genes
    Article Snippet: Sample labelling was performed as detailed in the Agilent “One-Color Microarray-Based Gene Expression Analysis” protocol (version 5.7, part number G4140-90040).

    Article Title: Development of an oligo DNA microarray for the European sea bass and its application to expression profiling of jaw deformity
    Article Snippet: Sample labeling and hybridization were performed according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol.



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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