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microarray raw intensities limma package r v2.13.0 software  (Agilent technologies)


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    Agilent technologies microarray raw intensities limma package r v2.13.0 software
    Microarray Raw Intensities Limma Package R V2.13.0 Software, 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+software+packages/pmc09643439-255-42-45
    Average 90 stars, based on 1 article reviews
    microarray raw intensities limma package r v2.13.0 software - by Bioz Stars, 2026-11
    90/100 stars

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    Related Articles

    Microarray:

    Article Title: Butyrate induced changes in Wnt-signaling specific gene expression in colorectal cancer cells
    Article Snippet: 4 Human cell samples Confidential Summary of procedures for microarray processing Total RNA samples were quantitated by UV spectrophotometry (OD260/280) First and second strand cDNA was prepared from the total RNA samples cRNA target was prepared from the DNA template and verified on the Bioanalyzer cRNA was fragmented to uniform size and hybridized to Agilent Human v2 GE 4x44K arrays Slides were washed and scanned on an Agilent G2565 Microarray Scanner Data was analyzed with Agilent Feature Extraction and GeneSpring GX v7.3.1 software packages RNA was extracted and purified using Ribopure (Ambion) RNA isolation Quality of Total RNA was assessed using an Agilent Bioanalyzer Confidential Total RNA quality analysis 1.0 2.0 4.0 6.0 0.5 0.2 kb 18S 28S R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an R N A Confidential cRNA quality analysis cRNA electropherograms C-19 CTRL C19-NaB C19-Doxy C-19 Doxy/NaB Human cRNA 0.2 0.5 1.0 2.0 4.0 6.0 kb 1.0 2.0 4.0 6.0 0.5 0.2 kb R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an c R N A Confidential Probes above background in at least one sample per comparison (L:18,885 probes; R:22,169 probes).

    Article Title: Recurrent and Non-Random DNA Copy Number and Chromosome Alterations in c-Myc Transgenic Mouse Model for Hepatocellular Carcinogenesis: Implications for Human Disease
    Article Snippet: Hybridization was carried out using Mouse Genome CGH Microarray 44A from Agilent Technologies (Santa Clara, CA) according to CGH Procedures for Genomic DNA Analysis (Agilent Technologies).

    Spectrophotometry:

    Article Title: Butyrate induced changes in Wnt-signaling specific gene expression in colorectal cancer cells
    Article Snippet: 4 Human cell samples Confidential Summary of procedures for microarray processing Total RNA samples were quantitated by UV spectrophotometry (OD260/280) First and second strand cDNA was prepared from the total RNA samples cRNA target was prepared from the DNA template and verified on the Bioanalyzer cRNA was fragmented to uniform size and hybridized to Agilent Human v2 GE 4x44K arrays Slides were washed and scanned on an Agilent G2565 Microarray Scanner Data was analyzed with Agilent Feature Extraction and GeneSpring GX v7.3.1 software packages RNA was extracted and purified using Ribopure (Ambion) RNA isolation Quality of Total RNA was assessed using an Agilent Bioanalyzer Confidential Total RNA quality analysis 1.0 2.0 4.0 6.0 0.5 0.2 kb 18S 28S R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an R N A Confidential cRNA quality analysis cRNA electropherograms C-19 CTRL C19-NaB C19-Doxy C-19 Doxy/NaB Human cRNA 0.2 0.5 1.0 2.0 4.0 6.0 kb 1.0 2.0 4.0 6.0 0.5 0.2 kb R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an c R N A Confidential Probes above background in at least one sample per comparison (L:18,885 probes; R:22,169 probes).

    Article Title: Recurrent and Non-Random DNA Copy Number and Chromosome Alterations in c-Myc Transgenic Mouse Model for Hepatocellular Carcinogenesis: Implications for Human Disease
    Article Snippet: Hybridization was carried out using Mouse Genome CGH Microarray 44A from Agilent Technologies (Santa Clara, CA) according to CGH Procedures for Genomic DNA Analysis (Agilent Technologies).

    Extraction:

    Article Title: Butyrate induced changes in Wnt-signaling specific gene expression in colorectal cancer cells
    Article Snippet: 4 Human cell samples Confidential Summary of procedures for microarray processing Total RNA samples were quantitated by UV spectrophotometry (OD260/280) First and second strand cDNA was prepared from the total RNA samples cRNA target was prepared from the DNA template and verified on the Bioanalyzer cRNA was fragmented to uniform size and hybridized to Agilent Human v2 GE 4x44K arrays Slides were washed and scanned on an Agilent G2565 Microarray Scanner Data was analyzed with Agilent Feature Extraction and GeneSpring GX v7.3.1 software packages RNA was extracted and purified using Ribopure (Ambion) RNA isolation Quality of Total RNA was assessed using an Agilent Bioanalyzer Confidential Total RNA quality analysis 1.0 2.0 4.0 6.0 0.5 0.2 kb 18S 28S R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an R N A Confidential cRNA quality analysis cRNA electropherograms C-19 CTRL C19-NaB C19-Doxy C-19 Doxy/NaB Human cRNA 0.2 0.5 1.0 2.0 4.0 6.0 kb 1.0 2.0 4.0 6.0 0.5 0.2 kb R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an c R N A Confidential Probes above background in at least one sample per comparison (L:18,885 probes; R:22,169 probes).

    Article Title: Recurrent and Non-Random DNA Copy Number and Chromosome Alterations in c-Myc Transgenic Mouse Model for Hepatocellular Carcinogenesis: Implications for Human Disease
    Article Snippet: Hybridization was carried out using Mouse Genome CGH Microarray 44A from Agilent Technologies (Santa Clara, CA) according to CGH Procedures for Genomic DNA Analysis (Agilent Technologies).

    Software:

    Article Title: Butyrate induced changes in Wnt-signaling specific gene expression in colorectal cancer cells
    Article Snippet: 4 Human cell samples Confidential Summary of procedures for microarray processing Total RNA samples were quantitated by UV spectrophotometry (OD260/280) First and second strand cDNA was prepared from the total RNA samples cRNA target was prepared from the DNA template and verified on the Bioanalyzer cRNA was fragmented to uniform size and hybridized to Agilent Human v2 GE 4x44K arrays Slides were washed and scanned on an Agilent G2565 Microarray Scanner Data was analyzed with Agilent Feature Extraction and GeneSpring GX v7.3.1 software packages RNA was extracted and purified using Ribopure (Ambion) RNA isolation Quality of Total RNA was assessed using an Agilent Bioanalyzer Confidential Total RNA quality analysis 1.0 2.0 4.0 6.0 0.5 0.2 kb 18S 28S R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an R N A Confidential cRNA quality analysis cRNA electropherograms C-19 CTRL C19-NaB C19-Doxy C-19 Doxy/NaB Human cRNA 0.2 0.5 1.0 2.0 4.0 6.0 kb 1.0 2.0 4.0 6.0 0.5 0.2 kb R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an c R N A Confidential Probes above background in at least one sample per comparison (L:18,885 probes; R:22,169 probes).

    Article Title: Recurrent and Non-Random DNA Copy Number and Chromosome Alterations in c-Myc Transgenic Mouse Model for Hepatocellular Carcinogenesis: Implications for Human Disease
    Article Snippet: Hybridization was carried out using Mouse Genome CGH Microarray 44A from Agilent Technologies (Santa Clara, CA) according to CGH Procedures for Genomic DNA Analysis (Agilent Technologies).

    Purification:

    Article Title: Butyrate induced changes in Wnt-signaling specific gene expression in colorectal cancer cells
    Article Snippet: 4 Human cell samples Confidential Summary of procedures for microarray processing Total RNA samples were quantitated by UV spectrophotometry (OD260/280) First and second strand cDNA was prepared from the total RNA samples cRNA target was prepared from the DNA template and verified on the Bioanalyzer cRNA was fragmented to uniform size and hybridized to Agilent Human v2 GE 4x44K arrays Slides were washed and scanned on an Agilent G2565 Microarray Scanner Data was analyzed with Agilent Feature Extraction and GeneSpring GX v7.3.1 software packages RNA was extracted and purified using Ribopure (Ambion) RNA isolation Quality of Total RNA was assessed using an Agilent Bioanalyzer Confidential Total RNA quality analysis 1.0 2.0 4.0 6.0 0.5 0.2 kb 18S 28S R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an R N A Confidential cRNA quality analysis cRNA electropherograms C-19 CTRL C19-NaB C19-Doxy C-19 Doxy/NaB Human cRNA 0.2 0.5 1.0 2.0 4.0 6.0 kb 1.0 2.0 4.0 6.0 0.5 0.2 kb R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an c R N A Confidential Probes above background in at least one sample per comparison (L:18,885 probes; R:22,169 probes).

    Article Title: Recurrent and Non-Random DNA Copy Number and Chromosome Alterations in c-Myc Transgenic Mouse Model for Hepatocellular Carcinogenesis: Implications for Human Disease
    Article Snippet: Hybridization was carried out using Mouse Genome CGH Microarray 44A from Agilent Technologies (Santa Clara, CA) according to CGH Procedures for Genomic DNA Analysis (Agilent Technologies).

    Isolation:

    Article Title: Butyrate induced changes in Wnt-signaling specific gene expression in colorectal cancer cells
    Article Snippet: 4 Human cell samples Confidential Summary of procedures for microarray processing Total RNA samples were quantitated by UV spectrophotometry (OD260/280) First and second strand cDNA was prepared from the total RNA samples cRNA target was prepared from the DNA template and verified on the Bioanalyzer cRNA was fragmented to uniform size and hybridized to Agilent Human v2 GE 4x44K arrays Slides were washed and scanned on an Agilent G2565 Microarray Scanner Data was analyzed with Agilent Feature Extraction and GeneSpring GX v7.3.1 software packages RNA was extracted and purified using Ribopure (Ambion) RNA isolation Quality of Total RNA was assessed using an Agilent Bioanalyzer Confidential Total RNA quality analysis 1.0 2.0 4.0 6.0 0.5 0.2 kb 18S 28S R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an R N A Confidential cRNA quality analysis cRNA electropherograms C-19 CTRL C19-NaB C19-Doxy C-19 Doxy/NaB Human cRNA 0.2 0.5 1.0 2.0 4.0 6.0 kb 1.0 2.0 4.0 6.0 0.5 0.2 kb R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an c R N A Confidential Probes above background in at least one sample per comparison (L:18,885 probes; R:22,169 probes).

    Article Title: Recurrent and Non-Random DNA Copy Number and Chromosome Alterations in c-Myc Transgenic Mouse Model for Hepatocellular Carcinogenesis: Implications for Human Disease
    Article Snippet: Hybridization was carried out using Mouse Genome CGH Microarray 44A from Agilent Technologies (Santa Clara, CA) according to CGH Procedures for Genomic DNA Analysis (Agilent Technologies).

    Comparison:

    Article Title: Butyrate induced changes in Wnt-signaling specific gene expression in colorectal cancer cells
    Article Snippet: 4 Human cell samples Confidential Summary of procedures for microarray processing Total RNA samples were quantitated by UV spectrophotometry (OD260/280) First and second strand cDNA was prepared from the total RNA samples cRNA target was prepared from the DNA template and verified on the Bioanalyzer cRNA was fragmented to uniform size and hybridized to Agilent Human v2 GE 4x44K arrays Slides were washed and scanned on an Agilent G2565 Microarray Scanner Data was analyzed with Agilent Feature Extraction and GeneSpring GX v7.3.1 software packages RNA was extracted and purified using Ribopure (Ambion) RNA isolation Quality of Total RNA was assessed using an Agilent Bioanalyzer Confidential Total RNA quality analysis 1.0 2.0 4.0 6.0 0.5 0.2 kb 18S 28S R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an R N A Confidential cRNA quality analysis cRNA electropherograms C-19 CTRL C19-NaB C19-Doxy C-19 Doxy/NaB Human cRNA 0.2 0.5 1.0 2.0 4.0 6.0 kb 1.0 2.0 4.0 6.0 0.5 0.2 kb R N A La dd er C -1 9 C TR L C 19 -N aB C 19 -D ox y C -1 9 D ox y/ N aB H um an c R N A Confidential Probes above background in at least one sample per comparison (L:18,885 probes; R:22,169 probes).

    Article Title: Recurrent and Non-Random DNA Copy Number and Chromosome Alterations in c-Myc Transgenic Mouse Model for Hepatocellular Carcinogenesis: Implications for Human Disease
    Article Snippet: Hybridization was carried out using Mouse Genome CGH Microarray 44A from Agilent Technologies (Santa Clara, CA) according to CGH Procedures for Genomic DNA Analysis (Agilent Technologies).



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    Image Search Results


    A, Electrophoresis of whole serum (WS) or fractionated serum IgG derived from a systemic lupus erythematosus (SLE) patient (L) and a normal subject (N). Molecular weight marker (M) is shown at the right. B, Scatterplot of entire gene set considered by microarray analysis to be expressed in podocytes (P < 0.05). The position of each dot on the scatterplot corresponds to the normalized average signal intensity (log scale) of a single gene. The normalized average signal intensity after exposure to SLE IgG and normal IgG is shown on the x and y axes, respectively. Broken red lines represent normal IgG:SLE IgG ratios of 2.0 (top; 2-fold greater expression in normal IgG) and 0.5 (bottom; 2-fold greater expression in SLE IgG). Black broken line is the mean.

    Journal: Arthritis & rheumatology (Hoboken, N.J.)

    Article Title: Lupus Nephritis IgG Induction of Calcium/Calmodulin-Dependent Protein Kinase IV Expression in Podocytes and Alteration of Their Function

    doi: 10.1002/art.39499

    Figure Lengend Snippet: A, Electrophoresis of whole serum (WS) or fractionated serum IgG derived from a systemic lupus erythematosus (SLE) patient (L) and a normal subject (N). Molecular weight marker (M) is shown at the right. B, Scatterplot of entire gene set considered by microarray analysis to be expressed in podocytes (P < 0.05). The position of each dot on the scatterplot corresponds to the normalized average signal intensity (log scale) of a single gene. The normalized average signal intensity after exposure to SLE IgG and normal IgG is shown on the x and y axes, respectively. Broken red lines represent normal IgG:SLE IgG ratios of 2.0 (top; 2-fold greater expression in normal IgG) and 0.5 (bottom; 2-fold greater expression in SLE IgG). Black broken line is the mean.

    Article Snippet: Scan data images were analyzed using the Microarray Data Analysis Tool software package (Filgen), a comprehensive program that also produced the gene ontology and Z score reports.

    Techniques: Electrophoresis, Derivative Assay, Molecular Weight, Marker, Microarray, Expressing