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mrna processing, microarray hybridisation and probe expression normalisation  (Arraystar inc)

 
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    Arraystar inc mrna processing, microarray hybridisation and probe expression normalisation
    Mrna Processing, Microarray Hybridisation And Probe Expression Normalisation, 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+mrna+expression+analyses/mrna+processing++microarray+hybridisation+and+probe+expression+normalisation/pmc04599578-153-27-17
    Average 90 stars, based on 1 article reviews
    mrna processing, microarray hybridisation and probe expression normalisation - by Bioz Stars, 2026-10
    90/100 stars

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    Related Articles

    Microarray:

    Article Title: Neoplastic-like transformation effect of single-walled and multi-walled carbon nanotubes compared to asbestos on human lung small airway epithelial cells
    Article Snippet: All exposed and passage control SAECs were seeded in triplicate at 5 × 10 5 cells to 60-mm plates in normal growth medium and incubated in normal growth conditions for 1–2 d. Then, sub-confluent plates were lysed with ice-cold TRIzol Reagent (Invitrogen) following manufacturer's instructions to collect mRNA. .. Lysates were then immediately frozen at −80° C for 24 h and shipped on dry ice to ArrayStar (Rockville, MD, USA) for mRNA processing, microarray hybridisation and probe expression normalisation. .. On arrival, mRNA was extracted following manufacturer's protocol and evaluated for RNA quality and quantity using a Bioanalyzer 2100 (Agilent) and Nanodrop ND-1000. mRNA was then reverse-transcribed with Superscript double-stranded-cDNA synthesis kit (Invitrogen). cDNA samples were then amplified, Cy3-labeled with NimbleGen one-colour DNA labelling kit and hybridised to NimbleGen whole human genome 12 × 135k microarrays in NimbleGen Hybridisation System.

    Hybridization:

    Article Title: Neoplastic-like transformation effect of single-walled and multi-walled carbon nanotubes compared to asbestos on human lung small airway epithelial cells
    Article Snippet: All exposed and passage control SAECs were seeded in triplicate at 5 × 10 5 cells to 60-mm plates in normal growth medium and incubated in normal growth conditions for 1–2 d. Then, sub-confluent plates were lysed with ice-cold TRIzol Reagent (Invitrogen) following manufacturer's instructions to collect mRNA. .. Lysates were then immediately frozen at −80° C for 24 h and shipped on dry ice to ArrayStar (Rockville, MD, USA) for mRNA processing, microarray hybridisation and probe expression normalisation. .. On arrival, mRNA was extracted following manufacturer's protocol and evaluated for RNA quality and quantity using a Bioanalyzer 2100 (Agilent) and Nanodrop ND-1000. mRNA was then reverse-transcribed with Superscript double-stranded-cDNA synthesis kit (Invitrogen). cDNA samples were then amplified, Cy3-labeled with NimbleGen one-colour DNA labelling kit and hybridised to NimbleGen whole human genome 12 × 135k microarrays in NimbleGen Hybridisation System.

    Expressing:

    Article Title: Neoplastic-like transformation effect of single-walled and multi-walled carbon nanotubes compared to asbestos on human lung small airway epithelial cells
    Article Snippet: All exposed and passage control SAECs were seeded in triplicate at 5 × 10 5 cells to 60-mm plates in normal growth medium and incubated in normal growth conditions for 1–2 d. Then, sub-confluent plates were lysed with ice-cold TRIzol Reagent (Invitrogen) following manufacturer's instructions to collect mRNA. .. Lysates were then immediately frozen at −80° C for 24 h and shipped on dry ice to ArrayStar (Rockville, MD, USA) for mRNA processing, microarray hybridisation and probe expression normalisation. .. On arrival, mRNA was extracted following manufacturer's protocol and evaluated for RNA quality and quantity using a Bioanalyzer 2100 (Agilent) and Nanodrop ND-1000. mRNA was then reverse-transcribed with Superscript double-stranded-cDNA synthesis kit (Invitrogen). cDNA samples were then amplified, Cy3-labeled with NimbleGen one-colour DNA labelling kit and hybridised to NimbleGen whole human genome 12 × 135k microarrays in NimbleGen Hybridisation System.



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    Image Search Results


    A hierarchical heatmap comparing global mRNA levels to RISC-IP mRNA levels in U-87 astrocytoma and primary astrocytes. MRNAs included in the heatmap had a fold change >1.4 and were significantly expressed (p<0.01).

    Journal: PLoS ONE

    Article Title: The MicroRNA and MessengerRNA Profile of the RNA-Induced Silencing Complex in Human Primary Astrocyte and Astrocytoma Cells

    doi: 10.1371/journal.pone.0013445

    Figure Lengend Snippet: A hierarchical heatmap comparing global mRNA levels to RISC-IP mRNA levels in U-87 astrocytoma and primary astrocytes. MRNAs included in the heatmap had a fold change >1.4 and were significantly expressed (p<0.01).

    Article Snippet: Gene expression microarray analyses of global mRNA and RISC-immunoprecipitated mRNA in primary human astrocytes and U-87 astrocytoma cells were outsourced to LC Sciences who are partnered with an Affymetrix® Authorized Service Provider, SeqWright DNA Technology Services (Houston, TX).

    Techniques:

    RISC-immunoprecipitated mRNA compared to global cellular mRNA in U-87 astrocytoma cells and primary astrocytes with a fold change > ±1.8 (p <0.01).

    Journal: PLoS ONE

    Article Title: The MicroRNA and MessengerRNA Profile of the RNA-Induced Silencing Complex in Human Primary Astrocyte and Astrocytoma Cells

    doi: 10.1371/journal.pone.0013445

    Figure Lengend Snippet: RISC-immunoprecipitated mRNA compared to global cellular mRNA in U-87 astrocytoma cells and primary astrocytes with a fold change > ±1.8 (p <0.01).

    Article Snippet: Gene expression microarray analyses of global mRNA and RISC-immunoprecipitated mRNA in primary human astrocytes and U-87 astrocytoma cells were outsourced to LC Sciences who are partnered with an Affymetrix® Authorized Service Provider, SeqWright DNA Technology Services (Houston, TX).

    Techniques: RNA Binding Assay, Sequencing

    ( A ) MRNA microarray validation with qRT-PCR analysis in grouped RISC-IP U-87 astrocytoma and primary astrocytes samples. Grouped RISC-IP data were compared to the grouped global mRNA from U-87 astrocytoma and primary astrocytes samples. Eight mRNAs were selected from the grouped mRNA microarray dataset and examined by qRT-PCR. Fold change from the mRNA microarray are given by log2 values (left y-axis, light grey bars). Fold change from the qRT-PCR was determined using the 2 -ΔΔCt method and all mRNA expression values were normalized to the beta-actin endogenous control (right y-axis, dark grey bars). Error bars represent the standard deviation of the mean (SD). Importantly, the fold change (y-axis) cannot be directly compared between assays due to differences in calculation methods, but the general trend of up-regulation and down-regulation can be compared. ( B ) MRNAs in RISC compared to the global cellular milieu in U-87 astrocytoma cells. MRNA expression in U-87 astrocytoma cells were normalized to primary astrocytes mRNA expression. All mRNAs had a fold change >2.5 and were significantly expressed (p<0.01). Green and red arrows indicate decreased and increased levels respectively.

    Journal: PLoS ONE

    Article Title: The MicroRNA and MessengerRNA Profile of the RNA-Induced Silencing Complex in Human Primary Astrocyte and Astrocytoma Cells

    doi: 10.1371/journal.pone.0013445

    Figure Lengend Snippet: ( A ) MRNA microarray validation with qRT-PCR analysis in grouped RISC-IP U-87 astrocytoma and primary astrocytes samples. Grouped RISC-IP data were compared to the grouped global mRNA from U-87 astrocytoma and primary astrocytes samples. Eight mRNAs were selected from the grouped mRNA microarray dataset and examined by qRT-PCR. Fold change from the mRNA microarray are given by log2 values (left y-axis, light grey bars). Fold change from the qRT-PCR was determined using the 2 -ΔΔCt method and all mRNA expression values were normalized to the beta-actin endogenous control (right y-axis, dark grey bars). Error bars represent the standard deviation of the mean (SD). Importantly, the fold change (y-axis) cannot be directly compared between assays due to differences in calculation methods, but the general trend of up-regulation and down-regulation can be compared. ( B ) MRNAs in RISC compared to the global cellular milieu in U-87 astrocytoma cells. MRNA expression in U-87 astrocytoma cells were normalized to primary astrocytes mRNA expression. All mRNAs had a fold change >2.5 and were significantly expressed (p<0.01). Green and red arrows indicate decreased and increased levels respectively.

    Article Snippet: Gene expression microarray analyses of global mRNA and RISC-immunoprecipitated mRNA in primary human astrocytes and U-87 astrocytoma cells were outsourced to LC Sciences who are partnered with an Affymetrix® Authorized Service Provider, SeqWright DNA Technology Services (Houston, TX).

    Techniques: Microarray, Quantitative RT-PCR, Expressing, Standard Deviation

    RISC-immunoprecipitated mRNA in human U-87 astrocytoma cells compared to RISC-immunoprecipitated mRNA in primary human astrocytes with a fold change >±2.6 (p <0.01).

    Journal: PLoS ONE

    Article Title: The MicroRNA and MessengerRNA Profile of the RNA-Induced Silencing Complex in Human Primary Astrocyte and Astrocytoma Cells

    doi: 10.1371/journal.pone.0013445

    Figure Lengend Snippet: RISC-immunoprecipitated mRNA in human U-87 astrocytoma cells compared to RISC-immunoprecipitated mRNA in primary human astrocytes with a fold change >±2.6 (p <0.01).

    Article Snippet: Gene expression microarray analyses of global mRNA and RISC-immunoprecipitated mRNA in primary human astrocytes and U-87 astrocytoma cells were outsourced to LC Sciences who are partnered with an Affymetrix® Authorized Service Provider, SeqWright DNA Technology Services (Houston, TX).

    Techniques:

    Bar charts display the relative number (-log(p-value)) of mRNAs with a fold change >2.5 and were considered significant (p<0.01). RISC-IP mRNA were indicated with dark blue bars and the global mRNA were indicated with light blue bars. The threshold (yellow lines) were set at p<0.01 and were calculated using Fischer's exact p-value test using IPA software.

    Journal: PLoS ONE

    Article Title: The MicroRNA and MessengerRNA Profile of the RNA-Induced Silencing Complex in Human Primary Astrocyte and Astrocytoma Cells

    doi: 10.1371/journal.pone.0013445

    Figure Lengend Snippet: Bar charts display the relative number (-log(p-value)) of mRNAs with a fold change >2.5 and were considered significant (p<0.01). RISC-IP mRNA were indicated with dark blue bars and the global mRNA were indicated with light blue bars. The threshold (yellow lines) were set at p<0.01 and were calculated using Fischer's exact p-value test using IPA software.

    Article Snippet: Gene expression microarray analyses of global mRNA and RISC-immunoprecipitated mRNA in primary human astrocytes and U-87 astrocytoma cells were outsourced to LC Sciences who are partnered with an Affymetrix® Authorized Service Provider, SeqWright DNA Technology Services (Houston, TX).

    Techniques: Software

    Bar charts display the relative number (-log(p-value)) of mRNAs with a fold change >2.5 and were considered significant (p<0.01). RISC-IP mRNA were indicated with dark blue bars and the global mRNA were indicated with light blue bars. The threshold (yellow lines) were set at p<0.01 and were calculated using Fischer's exact p-value test using IPA software.

    Journal: PLoS ONE

    Article Title: The MicroRNA and MessengerRNA Profile of the RNA-Induced Silencing Complex in Human Primary Astrocyte and Astrocytoma Cells

    doi: 10.1371/journal.pone.0013445

    Figure Lengend Snippet: Bar charts display the relative number (-log(p-value)) of mRNAs with a fold change >2.5 and were considered significant (p<0.01). RISC-IP mRNA were indicated with dark blue bars and the global mRNA were indicated with light blue bars. The threshold (yellow lines) were set at p<0.01 and were calculated using Fischer's exact p-value test using IPA software.

    Article Snippet: Gene expression microarray analyses of global mRNA and RISC-immunoprecipitated mRNA in primary human astrocytes and U-87 astrocytoma cells were outsourced to LC Sciences who are partnered with an Affymetrix® Authorized Service Provider, SeqWright DNA Technology Services (Houston, TX).

    Techniques: Software

    Specific messenger RNA fold change linked to the increased levels of miR-34a in U-87 astrocytoma RISC.

    Journal: PLoS ONE

    Article Title: The MicroRNA and MessengerRNA Profile of the RNA-Induced Silencing Complex in Human Primary Astrocyte and Astrocytoma Cells

    doi: 10.1371/journal.pone.0013445

    Figure Lengend Snippet: Specific messenger RNA fold change linked to the increased levels of miR-34a in U-87 astrocytoma RISC.

    Article Snippet: Gene expression microarray analyses of global mRNA and RISC-immunoprecipitated mRNA in primary human astrocytes and U-87 astrocytoma cells were outsourced to LC Sciences who are partnered with an Affymetrix® Authorized Service Provider, SeqWright DNA Technology Services (Houston, TX).

    Techniques: Permeability, Migration, Expressing, Binding Assay, Isolation

    Specific messenger RNA fold change linked to increased levels of miR-195 in U-87 astrocytoma RISC.

    Journal: PLoS ONE

    Article Title: The MicroRNA and MessengerRNA Profile of the RNA-Induced Silencing Complex in Human Primary Astrocyte and Astrocytoma Cells

    doi: 10.1371/journal.pone.0013445

    Figure Lengend Snippet: Specific messenger RNA fold change linked to increased levels of miR-195 in U-87 astrocytoma RISC.

    Article Snippet: Gene expression microarray analyses of global mRNA and RISC-immunoprecipitated mRNA in primary human astrocytes and U-87 astrocytoma cells were outsourced to LC Sciences who are partnered with an Affymetrix® Authorized Service Provider, SeqWright DNA Technology Services (Houston, TX).

    Techniques: Transduction