independent dna microarray Search Results


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independent dna arrays  (Thermo Fisher)
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Number of annotations assigned by each Sma3s module
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Number of annotations assigned by each Sma3s module
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Number of annotations assigned by each Sma3s module
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Number of annotations assigned by each Sma3s module
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Number of annotations assigned by each Sma3s module
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genome-wide methylation microarray analysis  (INFINIUM Inc)
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(A) To validate the changes in DNA <t>methylation,</t> the samples were re-analyzed with an Infinium <t>microarray</t> using independently bisulfite modified genomic DNA. The figure represents the number of CpG loci that showed CpG methylation changes with a Δβ-value of ≥0.1 in both experiments. 5-aza-CdR and TSA treated cells were used as positive and negative controls of validation. (B) Quantitative MSP (qMSP) was performed to validate the methylation changes in HCT116. Relative methylation was calculated by normalization of the methylation status of curcumin and 5-aza-CdR treated cells to controls. (C) The Venn diagram shows that CpG methylation changes overlap between HCT116, RKO and HT29 after the treatment with curcumin.
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qiaamp dna mini stool kit  (Qiagen)
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(A) To validate the changes in DNA <t>methylation,</t> the samples were re-analyzed with an Infinium <t>microarray</t> using independently bisulfite modified genomic DNA. The figure represents the number of CpG loci that showed CpG methylation changes with a Δβ-value of ≥0.1 in both experiments. 5-aza-CdR and TSA treated cells were used as positive and negative controls of validation. (B) Quantitative MSP (qMSP) was performed to validate the methylation changes in HCT116. Relative methylation was calculated by normalization of the methylation status of curcumin and 5-aza-CdR treated cells to controls. (C) The Venn diagram shows that CpG methylation changes overlap between HCT116, RKO and HT29 after the treatment with curcumin.
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customarray 12k microarray  (CustomArray Inc)
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(A) To validate the changes in DNA <t>methylation,</t> the samples were re-analyzed with an Infinium <t>microarray</t> using independently bisulfite modified genomic DNA. The figure represents the number of CpG loci that showed CpG methylation changes with a Δβ-value of ≥0.1 in both experiments. 5-aza-CdR and TSA treated cells were used as positive and negative controls of validation. (B) Quantitative MSP (qMSP) was performed to validate the methylation changes in HCT116. Relative methylation was calculated by normalization of the methylation status of curcumin and 5-aza-CdR treated cells to controls. (C) The Venn diagram shows that CpG methylation changes overlap between HCT116, RKO and HT29 after the treatment with curcumin.
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oligonucleotide microarrays  (CombiMatrix)
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(A) To validate the changes in DNA <t>methylation,</t> the samples were re-analyzed with an Infinium <t>microarray</t> using independently bisulfite modified genomic DNA. The figure represents the number of CpG loci that showed CpG methylation changes with a Δβ-value of ≥0.1 in both experiments. 5-aza-CdR and TSA treated cells were used as positive and negative controls of validation. (B) Quantitative MSP (qMSP) was performed to validate the methylation changes in HCT116. Relative methylation was calculated by normalization of the methylation status of curcumin and 5-aza-CdR treated cells to controls. (C) The Venn diagram shows that CpG methylation changes overlap between HCT116, RKO and HT29 after the treatment with curcumin.
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oligonucleotide microarrays  (CustomArray Inc)
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(A) To validate the changes in DNA <t>methylation,</t> the samples were re-analyzed with an Infinium <t>microarray</t> using independently bisulfite modified genomic DNA. The figure represents the number of CpG loci that showed CpG methylation changes with a Δβ-value of ≥0.1 in both experiments. 5-aza-CdR and TSA treated cells were used as positive and negative controls of validation. (B) Quantitative MSP (qMSP) was performed to validate the methylation changes in HCT116. Relative methylation was calculated by normalization of the methylation status of curcumin and 5-aza-CdR treated cells to controls. (C) The Venn diagram shows that CpG methylation changes overlap between HCT116, RKO and HT29 after the treatment with curcumin.
Oligonucleotide Microarrays, supplied by CustomArray Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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microarray dna methylation signature  (Epimmune Inc)
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(A) To validate the changes in DNA <t>methylation,</t> the samples were re-analyzed with an Infinium <t>microarray</t> using independently bisulfite modified genomic DNA. The figure represents the number of CpG loci that showed CpG methylation changes with a Δβ-value of ≥0.1 in both experiments. 5-aza-CdR and TSA treated cells were used as positive and negative controls of validation. (B) Quantitative MSP (qMSP) was performed to validate the methylation changes in HCT116. Relative methylation was calculated by normalization of the methylation status of curcumin and 5-aza-CdR treated cells to controls. (C) The Venn diagram shows that CpG methylation changes overlap between HCT116, RKO and HT29 after the treatment with curcumin.
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Image Search Results


Number of annotations assigned by each Sma3s module

Journal: DNA Research: An International Journal for Rapid Publication of Reports on Genes and Genomes

Article Title: Sma3s: A Three-Step Modular Annotator for Large Sequence Datasets

doi: 10.1093/dnares/dsu001

Figure Lengend Snippet: Number of annotations assigned by each Sma3s module

Article Snippet: We extracted two independent DNA arrays from the GEO database: Affymetrix Murine 11K SubB Array (AC:GPL76) and the Affymetrix Arabidopsis ATH1 Genome Array (AC:GPL198).

Techniques:

Annotation of two DNA arrays using Sma3s, Blast2GO and Top-BLAST. The annotation prediction results of mouse and Arabidopsis sequences are shown from Sma3s with all modules, Sma3s with the M3 module only, Blast2GO and Top-BLAST. The corresponding values appear above the bars. Sn, sensitivity; Sp, specificity; SC, sequence coverage; TC, term coverage. This figure appears in colour in the online version of DNA Research .

Journal: DNA Research: An International Journal for Rapid Publication of Reports on Genes and Genomes

Article Title: Sma3s: A Three-Step Modular Annotator for Large Sequence Datasets

doi: 10.1093/dnares/dsu001

Figure Lengend Snippet: Annotation of two DNA arrays using Sma3s, Blast2GO and Top-BLAST. The annotation prediction results of mouse and Arabidopsis sequences are shown from Sma3s with all modules, Sma3s with the M3 module only, Blast2GO and Top-BLAST. The corresponding values appear above the bars. Sn, sensitivity; Sp, specificity; SC, sequence coverage; TC, term coverage. This figure appears in colour in the online version of DNA Research .

Article Snippet: We extracted two independent DNA arrays from the GEO database: Affymetrix Murine 11K SubB Array (AC:GPL76) and the Affymetrix Arabidopsis ATH1 Genome Array (AC:GPL198).

Techniques: Sequencing

(A) To validate the changes in DNA methylation, the samples were re-analyzed with an Infinium microarray using independently bisulfite modified genomic DNA. The figure represents the number of CpG loci that showed CpG methylation changes with a Δβ-value of ≥0.1 in both experiments. 5-aza-CdR and TSA treated cells were used as positive and negative controls of validation. (B) Quantitative MSP (qMSP) was performed to validate the methylation changes in HCT116. Relative methylation was calculated by normalization of the methylation status of curcumin and 5-aza-CdR treated cells to controls. (C) The Venn diagram shows that CpG methylation changes overlap between HCT116, RKO and HT29 after the treatment with curcumin.

Journal: PLoS ONE

Article Title: Curcumin Modulates DNA Methylation in Colorectal Cancer Cells

doi: 10.1371/journal.pone.0057709

Figure Lengend Snippet: (A) To validate the changes in DNA methylation, the samples were re-analyzed with an Infinium microarray using independently bisulfite modified genomic DNA. The figure represents the number of CpG loci that showed CpG methylation changes with a Δβ-value of ≥0.1 in both experiments. 5-aza-CdR and TSA treated cells were used as positive and negative controls of validation. (B) Quantitative MSP (qMSP) was performed to validate the methylation changes in HCT116. Relative methylation was calculated by normalization of the methylation status of curcumin and 5-aza-CdR treated cells to controls. (C) The Venn diagram shows that CpG methylation changes overlap between HCT116, RKO and HT29 after the treatment with curcumin.

Article Snippet: First, we performed an independent genome-wide methylation microarray analysis (Infinium®) using matched independent bisulfite modified DNA samples from curcumin and control cell lines.

Techniques: DNA Methylation Assay, Microarray, Modification, CpG Methylation Assay, Biomarker Discovery, Methylation