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dna methylation microarray  (Genomictree Inc)

 
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    Structured Review

    Genomictree Inc dna methylation microarray
    ( A ) Kyoto Encyclopedia of Genes and Genome (KEGG) pathways associated with the significantly upregulated and downregulated differentially expressed genes (DEGs) between particulate matter (PM)-exposed and control (non-PM) rats ( p < 0.05). ( B ) Canonical pathways with significant Z-scores (>2) identified using ingenuity pathway analysis. Heatmaps showing the DEGs in the ( C ) cAMP response element-binding protein (CREB) and ( D ) cAMP signaling pathways. ( E ) Schematic diagram showing the methods and criteria for gene analysis. ( F ) Venn diagram showing the combined <t>DNA</t> <t>methylation</t> and transcriptome data. The red circle indicates 67 genes exhibiting hypomethylated/upregulated expression. ( G ) The top five KEGG pathways associated with the hypomethylated/upregulated genes.
    Dna Methylation Microarray, supplied by Genomictree 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+expression+and+methylation+probe/dna+methylation+microarray/pmc09332732-190-1-7
    Average 90 stars, based on 1 article reviews
    dna methylation microarray - by Bioz Stars, 2026-10
    90/100 stars

    Images

    1) Product Images from "Effects and Mechanism of Particulate Matter on Tendon Healing Based on Integrated Analysis of DNA Methylation and RNA Sequencing Data in a Rat Model"

    Article Title: Effects and Mechanism of Particulate Matter on Tendon Healing Based on Integrated Analysis of DNA Methylation and RNA Sequencing Data in a Rat Model

    Journal: International Journal of Molecular Sciences

    doi: 10.3390/ijms23158170

    ( A ) Kyoto Encyclopedia of Genes and Genome (KEGG) pathways associated with the significantly upregulated and downregulated differentially expressed genes (DEGs) between particulate matter (PM)-exposed and control (non-PM) rats ( p < 0.05). ( B ) Canonical pathways with significant Z-scores (>2) identified using ingenuity pathway analysis. Heatmaps showing the DEGs in the ( C ) cAMP response element-binding protein (CREB) and ( D ) cAMP signaling pathways. ( E ) Schematic diagram showing the methods and criteria for gene analysis. ( F ) Venn diagram showing the combined DNA methylation and transcriptome data. The red circle indicates 67 genes exhibiting hypomethylated/upregulated expression. ( G ) The top five KEGG pathways associated with the hypomethylated/upregulated genes.
    Figure Legend Snippet: ( A ) Kyoto Encyclopedia of Genes and Genome (KEGG) pathways associated with the significantly upregulated and downregulated differentially expressed genes (DEGs) between particulate matter (PM)-exposed and control (non-PM) rats ( p < 0.05). ( B ) Canonical pathways with significant Z-scores (>2) identified using ingenuity pathway analysis. Heatmaps showing the DEGs in the ( C ) cAMP response element-binding protein (CREB) and ( D ) cAMP signaling pathways. ( E ) Schematic diagram showing the methods and criteria for gene analysis. ( F ) Venn diagram showing the combined DNA methylation and transcriptome data. The red circle indicates 67 genes exhibiting hypomethylated/upregulated expression. ( G ) The top five KEGG pathways associated with the hypomethylated/upregulated genes.

    Techniques Used: Control, Binding Assay, Protein-Protein interactions, DNA Methylation Assay, Expressing

    Related Articles

    DNA Methylation Assay:

    Article Title: Effects and Mechanism of Particulate Matter on Tendon Healing Based on Integrated Analysis of DNA Methylation and RNA Sequencing Data in a Rat Model
    Article Snippet: The parameter calculation data were collected using Trapezium 2 software version 2.05 (Shimadzu). .. A DNA methylation microarray was performed by Genomictree (Daejeon, Korea) using the tendon tissues (n = 3 per group) and a custom-designed Agilent-based microarray platform with 2 × 400 K probes per slide (popular_2X400K_chip; Agilent Design ID: 086791; Agilent Technologies, Santa Clara, CA, USA). .. We successfully designed 60-mer probes for 389,347 measurements using eArray software (Agilent Technologies. http://earray.chem.agilent.com/earray/ ), following the standard probe design criteria.

    Microarray:

    Article Title: Effects and Mechanism of Particulate Matter on Tendon Healing Based on Integrated Analysis of DNA Methylation and RNA Sequencing Data in a Rat Model
    Article Snippet: The parameter calculation data were collected using Trapezium 2 software version 2.05 (Shimadzu). .. A DNA methylation microarray was performed by Genomictree (Daejeon, Korea) using the tendon tissues (n = 3 per group) and a custom-designed Agilent-based microarray platform with 2 × 400 K probes per slide (popular_2X400K_chip; Agilent Design ID: 086791; Agilent Technologies, Santa Clara, CA, USA). .. We successfully designed 60-mer probes for 389,347 measurements using eArray software (Agilent Technologies. http://earray.chem.agilent.com/earray/ ), following the standard probe design criteria.



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    Image Search Results


    We collected published datasets of human blood samples for gene expression, DNA methylation, and single-cell transcriptomic data. The analysis aimed to study the relation between the expression and DNA methylation of retrotransposons (RTEs) versus chronological and biological aging in large human cohorts. The single-cell transcriptomic datasets were employed for cell type-specific analysis of RTEs in peripheral blood mononuclear cell (PBMC) to identify the relation between RTE expression and aging events for annotated cell types within old versus young PBMC samples.

    Journal: eLife

    Article Title: Expression of most retrotransposons in human blood correlates with biological aging

    doi: 10.7554/eLife.96575

    Figure Lengend Snippet: We collected published datasets of human blood samples for gene expression, DNA methylation, and single-cell transcriptomic data. The analysis aimed to study the relation between the expression and DNA methylation of retrotransposons (RTEs) versus chronological and biological aging in large human cohorts. The single-cell transcriptomic datasets were employed for cell type-specific analysis of RTEs in peripheral blood mononuclear cell (PBMC) to identify the relation between RTE expression and aging events for annotated cell types within old versus young PBMC samples.

    Article Snippet: By overlapping Illumina microarray expression and methylation probe locations to RTE locations in RepeatMasker , we were able to identify a sufficient number of probes to calculate the expression and methylation levels of RTE classes and families.

    Techniques: Gene Expression, DNA Methylation Assay, Expressing

    (a, b), Methylation levels of RTE classes inversely correlated with chronological age in monocyte (Multi-Ethnic Study of Atherosclerosis, MESA) and whole blood (WB) (BSGS, SATSA, and GMPWAR) samples. Satellite DNA was included as a control group. ( c ), Methylation levels versus low (first quartile), medium (second and third quartile), and high (fourth quartile) expressions of RTE classes in monocytes (MESA). Wilcoxon test; ns: not significant. ( d ), Correlation matrix for RTE expressions and methylation levels, and chronological age. *p≤0.05, **p≤0.01, ***p≤0.001, ****p≤0.0001, Pearson’s correlation. MESA, n=1202; BSGS, n=614; GMPWAR, n=656; SATSA, n=1072.

    Journal: eLife

    Article Title: Expression of most retrotransposons in human blood correlates with biological aging

    doi: 10.7554/eLife.96575

    Figure Lengend Snippet: (a, b), Methylation levels of RTE classes inversely correlated with chronological age in monocyte (Multi-Ethnic Study of Atherosclerosis, MESA) and whole blood (WB) (BSGS, SATSA, and GMPWAR) samples. Satellite DNA was included as a control group. ( c ), Methylation levels versus low (first quartile), medium (second and third quartile), and high (fourth quartile) expressions of RTE classes in monocytes (MESA). Wilcoxon test; ns: not significant. ( d ), Correlation matrix for RTE expressions and methylation levels, and chronological age. *p≤0.05, **p≤0.01, ***p≤0.001, ****p≤0.0001, Pearson’s correlation. MESA, n=1202; BSGS, n=614; GMPWAR, n=656; SATSA, n=1072.

    Article Snippet: By overlapping Illumina microarray expression and methylation probe locations to RTE locations in RepeatMasker , we were able to identify a sufficient number of probes to calculate the expression and methylation levels of RTE classes and families.

    Techniques: Methylation, Control

    (a, b), Methylation levels of long terminal repeats (LTR) and LINE/SINE families negatively correlate with chronological age in monocytes (MESA) and the WB (BSGS, SATSA, and GMPWAR). **p≤0.01, ***p≤0.001, Wilcoxon test.

    Journal: eLife

    Article Title: Expression of most retrotransposons in human blood correlates with biological aging

    doi: 10.7554/eLife.96575

    Figure Lengend Snippet: (a, b), Methylation levels of long terminal repeats (LTR) and LINE/SINE families negatively correlate with chronological age in monocytes (MESA) and the WB (BSGS, SATSA, and GMPWAR). **p≤0.01, ***p≤0.001, Wilcoxon test.

    Article Snippet: By overlapping Illumina microarray expression and methylation probe locations to RTE locations in RepeatMasker , we were able to identify a sufficient number of probes to calculate the expression and methylation levels of RTE classes and families.

    Techniques: Methylation

    While LINE families, MIR, and long terminal repeats (LTR) families except ERVK show lower levels of methylation in higher expression groups, this pattern is not seen in Alu, CR1, and ERVl. *p≤0.05, **p≤0.01, ***p≤0.001, ****p≤0.0001, ns: not significant, Wilcoxon test.

    Journal: eLife

    Article Title: Expression of most retrotransposons in human blood correlates with biological aging

    doi: 10.7554/eLife.96575

    Figure Lengend Snippet: While LINE families, MIR, and long terminal repeats (LTR) families except ERVK show lower levels of methylation in higher expression groups, this pattern is not seen in Alu, CR1, and ERVl. *p≤0.05, **p≤0.01, ***p≤0.001, ****p≤0.0001, ns: not significant, Wilcoxon test.

    Article Snippet: By overlapping Illumina microarray expression and methylation probe locations to RTE locations in RepeatMasker , we were able to identify a sufficient number of probes to calculate the expression and methylation levels of RTE classes and families.

    Techniques: Methylation, Expressing