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methylation array  (INFINIUM Inc)

 
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    INFINIUM Inc methylation array
    Potential contributions of hypomethylated REs to carcinogenesis. As opposed to normal cells, cancer cells are characterized by cytosine <t>methylation</t> loss at repetitive DNA. This alteration can affect cell behaviour and contribute to cancer initiation/progression in several ways. The hypomethylated REs can be regulators of oncogenic lncRNAs and, thus, induce their abnormal transcription. TEs or satellite DNA, once hypomethylated, can be also transcribed potentially affecting several processes and leading to genomic and chromosome stability. Furthermore, hypomethylation of REs could affect chromosome structure making it more fragile and prone to breaks, recombination and even to the weakening of centromere function. By changing the compaction degree of the chromatin, hypomethylation of REs also affects nucleus size and organization which, we believe, could dangerously compromise cells, though this research field has not been well explored
    Methylation Array, supplied by INFINIUM 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/array-based+methylation+analysis/methylation+array/pmc08173753-140-13-13
    Average 90 stars, based on 1 article reviews
    methylation array - by Bioz Stars, 2026-10
    90/100 stars

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    1) Product Images from "Losing DNA methylation at repetitive elements and breaking bad"

    Article Title: Losing DNA methylation at repetitive elements and breaking bad

    Journal: Epigenetics & Chromatin

    doi: 10.1186/s13072-021-00400-z

    Potential contributions of hypomethylated REs to carcinogenesis. As opposed to normal cells, cancer cells are characterized by cytosine methylation loss at repetitive DNA. This alteration can affect cell behaviour and contribute to cancer initiation/progression in several ways. The hypomethylated REs can be regulators of oncogenic lncRNAs and, thus, induce their abnormal transcription. TEs or satellite DNA, once hypomethylated, can be also transcribed potentially affecting several processes and leading to genomic and chromosome stability. Furthermore, hypomethylation of REs could affect chromosome structure making it more fragile and prone to breaks, recombination and even to the weakening of centromere function. By changing the compaction degree of the chromatin, hypomethylation of REs also affects nucleus size and organization which, we believe, could dangerously compromise cells, though this research field has not been well explored
    Figure Legend Snippet: Potential contributions of hypomethylated REs to carcinogenesis. As opposed to normal cells, cancer cells are characterized by cytosine methylation loss at repetitive DNA. This alteration can affect cell behaviour and contribute to cancer initiation/progression in several ways. The hypomethylated REs can be regulators of oncogenic lncRNAs and, thus, induce their abnormal transcription. TEs or satellite DNA, once hypomethylated, can be also transcribed potentially affecting several processes and leading to genomic and chromosome stability. Furthermore, hypomethylation of REs could affect chromosome structure making it more fragile and prone to breaks, recombination and even to the weakening of centromere function. By changing the compaction degree of the chromatin, hypomethylation of REs also affects nucleus size and organization which, we believe, could dangerously compromise cells, though this research field has not been well explored

    Techniques Used: Methylation

    Related Articles

    Methylation:

    Article Title: Detection of cell-type-specific differentially methylated regions in epigenome-wide association studies
    Article Snippet: .. To mimic genomic locations of CpG sites assayed by typical methylation arrays used in EWAS, we took the genomic locations of the first G = 10 000 CpG sites of Chromosome 1 assayed by Infinium HumanMethylation EPIC array, which can be split into 134 blocks with each block containing 50–100 CpG sites (see ). ..

    Article Title: Epigenome-wide meta-analysis identifies DNA methylation biomarkers associated with diabetic kidney disease
    Article Snippet: Furthermore, the Mendelian randomisation analyses suggested that higher methylation levels at cg23527387 were also causally related to a lower risk of DKD, in line with the direction seen in the EWAS. .. Hypomethylation of cg23527387 has also been observed in a previous methylation analysis on DKD in 226 individuals with T1D using data generated from the Infinium 450 K methylation array (β = 0.86, p FDRadj = 6.0 × 10 −7 ) . ..

    Article Title: Prenatal DEHP exposure predicts neurological disorders via transgenerational epigenetics
    Article Snippet: .. Figure 1 Infinium methylation microarray analysis of Methylation changes in DEHP-exposed human placenta samples. ( A ) The flowchart shows how the pipeline of raw data was processed. .. DNA methylation was performed using the high-resolution Infinium MethylationEPIC BeadChip Kit interrogating about 850,000 methylation sites quantitatively across the genome at single-nucleotide resolution.

    Article Title: Narcolepsy type I-associated DNA methylation and gene expression changes in the human leukocyte antigen region.
    Article Snippet: .. Our previous methylation study of NT1 in blood samples using Infinium 27K methylation array thus removed HLA region from the analyses33. .. Here we suggested a method of rigorous analysis of DNA methylation in the HLA region, and conducted a more precise determination of DNA methylation rates of CD4+ and CD8+ T cells using Infinium methylation EPIC array (> 860K probes).

    Article Title: Methylation Heterogeneity and Gene Expression of SPG20 in Solid Tumors
    Article Snippet: .. We focused on a specific region upstream of the TSS that we previously characterized through the Infinium 450K methylation array. ..

    Article Title: Methylation marks in blood DNA reveal breast cancer risk in patients fulfilling hereditary disease criteria
    Article Snippet: .. To further support our findings, we assessed the aberrant methylation status of the cg47630224- MSH2 site across three independent cohorts that used the Illumina Infinium 450 K methylation array platform. ..

    Blocking Assay:

    Article Title: Detection of cell-type-specific differentially methylated regions in epigenome-wide association studies
    Article Snippet: .. To mimic genomic locations of CpG sites assayed by typical methylation arrays used in EWAS, we took the genomic locations of the first G = 10 000 CpG sites of Chromosome 1 assayed by Infinium HumanMethylation EPIC array, which can be split into 134 blocks with each block containing 50–100 CpG sites (see ). ..

    Generated:

    Article Title: Epigenome-wide meta-analysis identifies DNA methylation biomarkers associated with diabetic kidney disease
    Article Snippet: Furthermore, the Mendelian randomisation analyses suggested that higher methylation levels at cg23527387 were also causally related to a lower risk of DKD, in line with the direction seen in the EWAS. .. Hypomethylation of cg23527387 has also been observed in a previous methylation analysis on DKD in 226 individuals with T1D using data generated from the Infinium 450 K methylation array (β = 0.86, p FDRadj = 6.0 × 10 −7 ) . ..

    Microarray:

    Article Title: Prenatal DEHP exposure predicts neurological disorders via transgenerational epigenetics
    Article Snippet: .. Figure 1 Infinium methylation microarray analysis of Methylation changes in DEHP-exposed human placenta samples. ( A ) The flowchart shows how the pipeline of raw data was processed. .. DNA methylation was performed using the high-resolution Infinium MethylationEPIC BeadChip Kit interrogating about 850,000 methylation sites quantitatively across the genome at single-nucleotide resolution.

    other:

    Article Title: DNA Hypomethylation Underlies Epigenetic Swapping between AGO1 and AGO1-V2 Isoforms in Tumors
    Article Snippet: For AGO1-V2 promoter DNA hypomethylation analyses, Infinium methylation levels (ß values) were examined for the only CpG probe (cg09752398) located in the promoter region (TSS ± 1000 pb).

    Article Title: The technology landscape for detection of DNA methylation in cancer liquid biopsies
    Article Snippet: , Micro arrays: Infinium methylation 450K/EPIC (2.0) , Yes , Yes , High , Medium , High , Low , Medium , Medium , Medium , Medium , – EPICUP , [ , , ] .



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    Image Search Results


    Details of the included studies concerning LBP-related epigenetic regulation: DNA methylation in peripheral blood cells. Studies are listed in chronological order.

    Journal: International Journal of Molecular Sciences

    Article Title: Epigenetic Factors Related to Low Back Pain: A Systematic Review of the Current Literature

    doi: 10.3390/ijms24031854

    Figure Lengend Snippet: Details of the included studies concerning LBP-related epigenetic regulation: DNA methylation in peripheral blood cells. Studies are listed in chronological order.

    Article Snippet: Genome-wide association study (GWAS) (II) , Discovery cohort: 32 - Control group: 16 - Low back pain group: 16 Validation cohort: 63 - Control group: 16 - Low back pain group: 37 , Discovery cohort: - Control females: 43.8 ± 4.6 - Low back pain females: 41.3 ± 3.8 - Control males: 43.8 ± 4.0 - Low back pain males: 42.6 ± 3.6 Males: 16 (50%) Females: 16 (50%) Validation cohort: - Control females: 38.5 ± 3.5 - Low back pain females: 46.1 ± 2.7 - Control males: 43.1 ± 3.2 - Low back pain males: 48.4 ± 2.6 Males: 31 (49%) Females: 32 (51%) Caucasian , Canadian adaptation of NIH low back pain taskforce, DN4 and ODI \ NS , T cells isolated from peripheral blood Array-based methylation analyis (Illumina) after bisulfite treatment, followed by validation by pyrosequencing , 850,000 CpG sites , Of the 736,414 CpGs identified in men, 179 were hypermethylated and 240 were hypomethylated in LBP patients compared to controls. Of the 735,863 CpGs identified in women, 601 were hypermethylated and 1895 were hypomethylated ( p -value < 0.05). The generation of a polygenic methylation score for LBP in men and women with three surrogate CpG loci: cg07420274 for women; cg21149944 and cg22831726 for men. In women, the percentage of methylation at position cg07420274 was 39.5 ± 6 2.7% and 49.7 ± 6 3.2% in the control ( n = 21) and LBP groups ( n = 25), respectively ( p < 0.05). A statistically significant association between methylation at cg07420274 and LBP was observed (OR = 1.05, 95% CI: 1.01–1.11, p < 0.03). In men, a statistically significant association was found between LBP and cg21149944 methylation (OR = 0.89, 95% CI: 0.82–0.95, p < 0.0015) as well as cg22831726 methylation (OR = 0.9, 95% CI: 0.84–0.96, p < 0.0036). , S. Grègoire (2021) [ ] .

    Techniques: DNA Methylation Assay, Genome Wide, Methylation, Expressing, Methylation Sequencing, Isolation, Enzyme-linked Immunosorbent Assay

    Cytogenetics, cytogenomics, and molecular techniques used to study ring chromosome 20 [r(20)].

    Journal: Frontiers in Neurology

    Article Title: Ring Chromosome 20 Syndrome: Genetics, Clinical Characteristics, and Overlapping Phenotypes

    doi: 10.3389/fneur.2020.613035

    Figure Lengend Snippet: Cytogenetics, cytogenomics, and molecular techniques used to study ring chromosome 20 [r(20)].

    Article Snippet: Array-based genome-wide methylation analysis array (Human Methylation450 BeadChip kit, Illumina) , Evaluation of the methylation level of CpGs in the whole genome in r(20) patients compared to normal controls , Tissue-specific and low-level epimutation mosaicism cannot be detected , Calzari L. [patients from Giardino et al. ( )]; present data ( ) .

    Techniques: Biomarker Discovery, Sequencing, Microarray, Genome Wide, Methylation