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dna microarray scanner (g2505b  (Agilent technologies)


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    Structured Review

    Agilent technologies dna microarray scanner (g2505b
    Dna Microarray Scanner (G2505b, 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/dna+microarray+scanner/pm38968100-365-17-17
    Average 90 stars, based on 1 article reviews
    dna microarray scanner (g2505b - by Bioz Stars, 2026-09
    90/100 stars

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    Related Articles

    Labeling:

    Article Title: Genome-wide DNA methylation profiling after Ayurveda intervention to bronchial asthmatics identifies differential methylation in several transcription factors with immune process related function.
    Article Snippet: The PCR product was purified using the NucleoSpin® Gel and PCR Clean-up kit (MachereyeNagel, Germany), subsequently labeled with cyanine3 and cyanine5 (Amersham Biosciences, USA) by using BioPrime array CGH genomic labeling system (Thermo Fisher Scientific, USA). .. Equal concentrations of labeled cyanine3 and cyanine5 enriched for unmethylated and methylated DNA fragments respectively were co-hybridized onto the Agilent 244 K CpG island microarray chip (Agilent Technologies, USA) at 65 C, and speed of the hybridization rotator was set to rotate at 18 rpm for 40 h. Slides were washed with wash buffer after hybridization, dried and scanned using G2505B DNA microarray scanner (Agilent Technology, USA) with Sure Scan High resolution technology (Methodology detailed in Supplementary Methods). .. Agilent Feature Extraction software (v 10.5.1.1) was used to extract background corrected loess normalized green and red processed signal intensities within the array.

    Article Title: Systems Biology for Drug Target Discovery in Acute Myeloid Leukemia
    Article Snippet: Also, according to the standard protocol, appropriate amounts of RNA from the Agilent RNA Spike-In Kit (Agilent Technologies, Santa Clara, CA, USA) were added to the samples. .. Fluorescently labeled cRNA was fragmented, hybridized with 4x44K G4112F Agilent whole-genome expression chips, and scanned on an Agilent G2505B confocal laser scanner (all Agilent Technologies, Santa Clara, CA, USA). .. Data extraction and primary statistical processing were performed using Feature Extraction 10.10.1.1 software (Agilent Technologies, Santa Clara, CA, USA).

    Methylation:

    Article Title: Genome-wide DNA methylation profiling after Ayurveda intervention to bronchial asthmatics identifies differential methylation in several transcription factors with immune process related function.
    Article Snippet: The PCR product was purified using the NucleoSpin® Gel and PCR Clean-up kit (MachereyeNagel, Germany), subsequently labeled with cyanine3 and cyanine5 (Amersham Biosciences, USA) by using BioPrime array CGH genomic labeling system (Thermo Fisher Scientific, USA). .. Equal concentrations of labeled cyanine3 and cyanine5 enriched for unmethylated and methylated DNA fragments respectively were co-hybridized onto the Agilent 244 K CpG island microarray chip (Agilent Technologies, USA) at 65 C, and speed of the hybridization rotator was set to rotate at 18 rpm for 40 h. Slides were washed with wash buffer after hybridization, dried and scanned using G2505B DNA microarray scanner (Agilent Technology, USA) with Sure Scan High resolution technology (Methodology detailed in Supplementary Methods). .. Agilent Feature Extraction software (v 10.5.1.1) was used to extract background corrected loess normalized green and red processed signal intensities within the array.

    Microarray:

    Article Title: Genome-wide DNA methylation profiling after Ayurveda intervention to bronchial asthmatics identifies differential methylation in several transcription factors with immune process related function.
    Article Snippet: The PCR product was purified using the NucleoSpin® Gel and PCR Clean-up kit (MachereyeNagel, Germany), subsequently labeled with cyanine3 and cyanine5 (Amersham Biosciences, USA) by using BioPrime array CGH genomic labeling system (Thermo Fisher Scientific, USA). .. Equal concentrations of labeled cyanine3 and cyanine5 enriched for unmethylated and methylated DNA fragments respectively were co-hybridized onto the Agilent 244 K CpG island microarray chip (Agilent Technologies, USA) at 65 C, and speed of the hybridization rotator was set to rotate at 18 rpm for 40 h. Slides were washed with wash buffer after hybridization, dried and scanned using G2505B DNA microarray scanner (Agilent Technology, USA) with Sure Scan High resolution technology (Methodology detailed in Supplementary Methods). .. Agilent Feature Extraction software (v 10.5.1.1) was used to extract background corrected loess normalized green and red processed signal intensities within the array.

    Article Title: Toxicity of Metal Oxide Nanoparticles: Looking through the Lens of Toxicogenomics
    Article Snippet: Next, 300 ng of cyanine 5-CTP-labeled sample RNA and 300 ng of cyanine 3-CTP-labeled reference were mixed and hybridized onto 8 × 60K Agilent SurePrint G3 Mouse Gene Expression v2 Microarray slides (Agilent Technologies, Inc., Santa Clara, CA, USA) in a hybridization oven for 17 h (65 °C, 10 rpm). .. The next day, slides were washed according to the manufacturer’s instructions and scanned on an Agilent G4900DA Microarray Scanner and an Agilent G2505B Microarray Scanner (Agilent Technologies, Inc., Santa Clara, CA, USA). .. Data from the resulting images were extracted using the Agilent Feature Extraction 11.01.1 software (Agilent Technologies, Inc., Santa Clara, CA, USA).

    Article Title: MicroRNAs in the Pathogenesis of Preeclampsia—A Case-Control In Silico Analysis
    Article Snippet: After hybridization, microarray slides were washed for 1 min at room temperature with GE wash buffer 1 (Agilent) and 1 min with 37 °C GE wash buffer 2 (Agilent) and then dried immediately by brief centrifugation. .. Slides were scanned immediately after washing on an Agilent DNA Microarray Scanner (G2505B) using one color scan setting for 1 × 44k array slides (scan area of 61 × 21.6 mm 2 ; scan resolution of 10 μm; dye channel set to Green, and Green PMT was set to 100%). .. The scanned images were analyzed using Feature Extraction Software 9.1 (Agilent).

    Article Title: MicroRNAs in the Pathogenesis of Preeclampsia-A Case-Control In Silico Analysis.
    Article Snippet: After hybridization, microarray slides were washed for 1 min at room temperature with GE wash buffer 1 (Agilent) and 1 min with 37 ◦C GE wash buffer 2 (Agilent) and then dried immediately by brief centrifugation. .. Slides were scanned immediately after washing on an Agilent DNA Microarray Scanner (G2505B) using one color scan setting for 1 × 44k array slides (scan area of 61 × 21.6 mm2; scan resolution of 10 μm; dye channel set to Green, and Green PMT was set to 100%). .. The scanned images were analyzed using Feature Extraction Software 9.1 (Agilent).

    Article Title: The MKK3 MAPK cascade integrates temperature and after-ripening signals to modulate seed germination
    Article Snippet: The labeled cRNA was fragmented and hybridized to Agilent Arabidopsis 4 Oligo Microarrays (G2519F) for 17 h at 65 oC. .. After hybridization on 4 x 44K array slide, the arrays were washed and scanned by Agilent DNA Microarray Scanner (G2505B) according to one-color methods. .. Signal intensities were measured by Feature Extraction Software 11.5.1.1 (Agilent) and data analysis were performed by Gene Spring (Agilent) and R software.

    Article Title: Toxicity of Metal Oxide Nanoparticles: Looking through the Lens of Toxicogenomics.
    Article Snippet: Next, 300 ng of cyanine 5-CTP-labeled sample RNA and 300 ng of cyanine 3-CTP-labeled reference were mixed and hybridized onto 8 × 60K Agilent SurePrint G3 Mouse Gene Expression v2 Microarray slides (Agilent Technologies, Inc., Santa Clara, CA, USA) in a hybridization oven for 17 h (65 ◦C, 10 rpm). .. The next day, slides were washed according to the manufacturer’s instructions and scanned on an Agilent G4900DA Microarray Scanner and an Agilent G2505B Microarray Scanner (Agilent Technologies, Inc., Santa Clara, CA, USA). .. Data from the resulting images were extracted using the Agilent Feature Extraction 11.01.1 software (Agilent Technologies, Inc., Santa Clara, CA, USA).

    Hybridization:

    Article Title: Genome-wide DNA methylation profiling after Ayurveda intervention to bronchial asthmatics identifies differential methylation in several transcription factors with immune process related function.
    Article Snippet: The PCR product was purified using the NucleoSpin® Gel and PCR Clean-up kit (MachereyeNagel, Germany), subsequently labeled with cyanine3 and cyanine5 (Amersham Biosciences, USA) by using BioPrime array CGH genomic labeling system (Thermo Fisher Scientific, USA). .. Equal concentrations of labeled cyanine3 and cyanine5 enriched for unmethylated and methylated DNA fragments respectively were co-hybridized onto the Agilent 244 K CpG island microarray chip (Agilent Technologies, USA) at 65 C, and speed of the hybridization rotator was set to rotate at 18 rpm for 40 h. Slides were washed with wash buffer after hybridization, dried and scanned using G2505B DNA microarray scanner (Agilent Technology, USA) with Sure Scan High resolution technology (Methodology detailed in Supplementary Methods). .. Agilent Feature Extraction software (v 10.5.1.1) was used to extract background corrected loess normalized green and red processed signal intensities within the array.

    Article Title: The MKK3 MAPK cascade integrates temperature and after-ripening signals to modulate seed germination
    Article Snippet: The labeled cRNA was fragmented and hybridized to Agilent Arabidopsis 4 Oligo Microarrays (G2519F) for 17 h at 65 oC. .. After hybridization on 4 x 44K array slide, the arrays were washed and scanned by Agilent DNA Microarray Scanner (G2505B) according to one-color methods. .. Signal intensities were measured by Feature Extraction Software 11.5.1.1 (Agilent) and data analysis were performed by Gene Spring (Agilent) and R software.

    other:

    Article Title: The MKK3 MAPK cascade integrates temperature and after-ripening signals to modulate seed germination.
    Article Snippet: After hybridization on a 4 × 44 K array slide, the arrays were washed and scanned by Agilent DNA Microarray Scanner (G2505B) according to onecolor methods.

    Expressing:

    Article Title: Systems Biology for Drug Target Discovery in Acute Myeloid Leukemia
    Article Snippet: Also, according to the standard protocol, appropriate amounts of RNA from the Agilent RNA Spike-In Kit (Agilent Technologies, Santa Clara, CA, USA) were added to the samples. .. Fluorescently labeled cRNA was fragmented, hybridized with 4x44K G4112F Agilent whole-genome expression chips, and scanned on an Agilent G2505B confocal laser scanner (all Agilent Technologies, Santa Clara, CA, USA). .. Data extraction and primary statistical processing were performed using Feature Extraction 10.10.1.1 software (Agilent Technologies, Santa Clara, CA, USA).



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    <t>Microarray</t> analysis of transfected HeLa cells with miR-141 overexpressing vector. A Microarray analysis of gene expression in HeLa cells transfected with miR-141 overexpression vs. cells transfected with the control vector using a miRNA library from Exiqon. B Microarray analysis of gene expression in HeLa cells transfected with miR-141 overexpression vs. cells transfected with the control vector using oligonucleotides from Ambion. The blue color indicates the sustained gene expression, the red indicates the upregulated genes, and the green indicates the downregulated genes. C The expression of the most relevant genes to cervical cancer indicates the upregulated genes in red columns and downregulated genes in green. Error bars indicate the STD between Exiqon and Ambion data. D The potential binding sites of miR-141 within the 3 − UTR of KLRC1 and coding sequences of KLRC3, CAM3, and that carried out in-silico by miRWalk online tool
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    Microarray analysis of transfected HeLa cells with miR-141 overexpressing vector. A Microarray analysis of gene expression in HeLa cells transfected with miR-141 overexpression vs. cells transfected with the control vector using a miRNA library from Exiqon. B Microarray analysis of gene expression in HeLa cells transfected with miR-141 overexpression vs. cells transfected with the control vector using oligonucleotides from Ambion. The blue color indicates the sustained gene expression, the red indicates the upregulated genes, and the green indicates the downregulated genes. C The expression of the most relevant genes to cervical cancer indicates the upregulated genes in red columns and downregulated genes in green. Error bars indicate the STD between Exiqon and Ambion data. D The potential binding sites of miR-141 within the 3 − UTR of KLRC1 and coding sequences of KLRC3, CAM3, and that carried out in-silico by miRWalk online tool

    Journal: BMC Cancer

    Article Title: Regulation of KLRC and Ceacam gene expression by miR-141 supports cell proliferation and metastasis in cervical cancer cells

    doi: 10.1186/s12885-024-12794-6

    Figure Lengend Snippet: Microarray analysis of transfected HeLa cells with miR-141 overexpressing vector. A Microarray analysis of gene expression in HeLa cells transfected with miR-141 overexpression vs. cells transfected with the control vector using a miRNA library from Exiqon. B Microarray analysis of gene expression in HeLa cells transfected with miR-141 overexpression vs. cells transfected with the control vector using oligonucleotides from Ambion. The blue color indicates the sustained gene expression, the red indicates the upregulated genes, and the green indicates the downregulated genes. C The expression of the most relevant genes to cervical cancer indicates the upregulated genes in red columns and downregulated genes in green. Error bars indicate the STD between Exiqon and Ambion data. D The potential binding sites of miR-141 within the 3 − UTR of KLRC1 and coding sequences of KLRC3, CAM3, and that carried out in-silico by miRWalk online tool

    Article Snippet: The microarray experiments were scanned using a DNA microarray laser scanner (DNA Microarray Scanner BA, Agilent Technologies) at 5 µm resolution using Ambion ship and Exiqon ship according to the manufacturer’s instructions.

    Techniques: Microarray, Transfection, Plasmid Preparation, Expressing, Over Expression, Control, Binding Assay, In Silico

    The prediction information between miR-141 and targeted genes identified by  microarray  analysis using in-silico miRWalk tool

    Journal: BMC Cancer

    Article Title: Regulation of KLRC and Ceacam gene expression by miR-141 supports cell proliferation and metastasis in cervical cancer cells

    doi: 10.1186/s12885-024-12794-6

    Figure Lengend Snippet: The prediction information between miR-141 and targeted genes identified by microarray analysis using in-silico miRWalk tool

    Article Snippet: The microarray experiments were scanned using a DNA microarray laser scanner (DNA Microarray Scanner BA, Agilent Technologies) at 5 µm resolution using Ambion ship and Exiqon ship according to the manufacturer’s instructions.

    Techniques: Microarray, Binding Assay

    Flow chart of microarray data analysis. The agilent single color microarray platform was used having more than 58,000 transcripts and further data processing was done using agilent GeneSpring software followed by pathway analysis using GSEA database. Numbers in parentheses illustrates number of pathways enriched in each category using GSEA database. DEGs-Differentially expressed genes, ANOVA-Analysis of variance, BP-Biological pathway, CC-Cellular component, MF-Molecular function.

    Journal: bioRxiv

    Article Title: Synovial fluid transcriptome dynamics in osteoarthritis progression: Implications in pathogenesis

    doi: 10.1101/2024.06.24.600143

    Figure Lengend Snippet: Flow chart of microarray data analysis. The agilent single color microarray platform was used having more than 58,000 transcripts and further data processing was done using agilent GeneSpring software followed by pathway analysis using GSEA database. Numbers in parentheses illustrates number of pathways enriched in each category using GSEA database. DEGs-Differentially expressed genes, ANOVA-Analysis of variance, BP-Biological pathway, CC-Cellular component, MF-Molecular function.

    Article Snippet: Following hybridization, the array slides were washed and scanned with an Agilent SureScan High-Resolution DNA Microarray Scanner.

    Techniques: Microarray, Software