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infinium methylationepic bead chip array  (Illumina Inc)


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    Illumina Inc infinium methylationepic bead chip array
    Infinium Methylationepic Bead Chip Array, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 96/100, based on 1146 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/array-based+infinium+beadchip/Infinium+MethylationEPIC+BeadChip+Kit/pm35892159-58-1-5
    Average 96 stars, based on 1146 article reviews
    infinium methylationepic bead chip array - by Bioz Stars, 2026-09
    96/100 stars

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    Related Articles

    Methylation:

    Article Title: imAgeScore, a Cell Painting-Based Predictor of Cellular Age for High-throughput Drug Screening Applications
    Article Snippet: Genomic DNA was extracted using the DNeasy Blood and Tissue Kit (QIAGEN, 69504) according to the manufacturer’s instructions, including the optional RNase digestion step. .. Methylation profiling was performed at the Clock Foundation ( https://clockfoundation.org ) using the Infinium MethylationEPIC BeadChip (Illumina). ..

    DNA Methylation Assay:

    Article Title: Associations between short-term temperature variability and DNA methylation aging: Evidence from a population-based cohort in Taiwan.
    Article Snippet: Climate change alters the magnitude and pattern of temperature variability, however, its relationship with biological aging remains poorly understood.. This study assessed the associations between short-term temperature variability and DNA methylation age among 2084 participants enrolled between 2008 and 2016 from the Taiwan Biobank.. Temperature variability within the 7-d exposure window was measured using six indices: both ambient temperature and the heat index (HI) were calculated for diurnal temperature range (DTR), temperature change between neighboring days (TCN), and temperature variability (TV).

    Article Title: RAS/BRAF wild-type metastatic high-methylated colorectal cancer has gene expression patterns related to MSI-H and BRAF V600E mutant: a translational research.
    Article Snippet: .. Genome-wide DNA methylation analysis was conducted using the Infinium MethylationEPIC BeadChip (Illumina, San Diego, CA, USA) as previously described [4]. .. The BeadChip was scanned using the iScan, and the DNA methylation β-value was calculated as intensity of methylated probe / (intensity of methylated probe + intensity of unmethylated probe).

    Article Title: Novel epigenetic loci identified from an epigenome-wide association study underlying brain structural changes in bipolar disorder.
    Article Snippet: .. To measure the DNA methylation levels of peripheral bloodof eachparticipant, the Infinium MethylationEPIC BeadChip (Illumina Inc.; San Diego, CA, USA) was used according to the manufacturer’s protocol (Supplementary Method 2). ..

    Article Title: TET CpG sequence-context-specific DNA demethylation shapes progression of IDH-mutant gliomas.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies MIB1/Ki-67 (Rabbit anti-human) Ventana Cat#790-4286; RRID: AB_2631262 Critical commercial assays Illumina Infinium MethylationEPIC BeadChip v1.0 (850k) Illumina Cat#WG-317-1003 QIAamp DNA FFPE Tissue Kit Qiagen Cat#56404 ultraView Universal DAB Detection Kit Roche Cat#760-500 Deposited data DNA Methylation data (GLASS-OD) This paper GEO: GSE297733 Proteomics raw data (GLASS-OD) This paper PRIDE: PXD070222 DNA Methylation differential analysis outcomes This paper Data S1: Zenodo: https://zenodo.org/records/ 1771174 Proteomics processed data ( GLASS-OD) This paper Data S2: Zenodo: https://zenodo.org/records/ 17711746 Proteomics differential analysis outcomes (GLASS-OD) This paper Data S3: Zenodo: https://zenodo.org/records/ 17711746 Proteomics differential analysis outcomes (GLASS-NL) This paper Data S4: Zenodo: https://zenodo.org/records/ 17711746 DNA Methylation data (Mair & Berghoff) https://doi.org/10.1158/ 1078-0432. ..

    Genome Wide:

    Article Title: RAS/BRAF wild-type metastatic high-methylated colorectal cancer has gene expression patterns related to MSI-H and BRAF V600E mutant: a translational research.
    Article Snippet: .. Genome-wide DNA methylation analysis was conducted using the Infinium MethylationEPIC BeadChip (Illumina, San Diego, CA, USA) as previously described [4]. .. The BeadChip was scanned using the iScan, and the DNA methylation β-value was calculated as intensity of methylated probe / (intensity of methylated probe + intensity of unmethylated probe).

    Article Title: Epigenetic aging and cancer incidence in a German cohort of older adults
    Article Snippet: .. Genome-wide DNAm was assessed using the Infinium MethylationEPIC (850 K) BeadChip Kit (Illumina, San Diego, CA, USA), according to the manufacturer’s instructions, by the Genomics and Proteomics Core Facility at the German Cancer Research Center (DKFZ), Heidelberg, Germany , , . ..

    Amplification:

    Article Title: PTPN11 -related Noonan syndrome predisposes to multifocal low-grade CNS tumors harboring FGFR1 variants
    Article Snippet: DNA from FFPE tissue was subsequently restored by using the Infinium FFPE DNA Restore kit (Illumina). .. Bisulfite-converted DNA was amplified, fragmented, and purified using the Infinium MethylationEPIC BeadChip Kit (Illumina) according to the manufacturer’s protocol, then hybridized to the BeadChip array (Illumina). .. The BeadChip array was washed, prepared, stained, and scanned on the Illumina NextSeq 550 (Illumina) per the manufacturer’s protocol. iDAT files were uploaded and classified using version 11b6 and 12.5 of the CNS tumor methylation classifier ( https://www.molecularneuropathology.org/mnp/ ).

    Article Title: Non-linear age-related change in human Interleukin-11 and the receptor subunit alpha DNA methylation
    Article Snippet: A total of 500 ng of DNA from each sample underwent bisulfite conversion using the EZ DNA Methylation kit (Zymo Research, USA). .. The bisulfite-converted DNA samples were then allocated to designated wells on the Infinium HumanMethylationEPIC BeadChip (Illumina Inc, USA), where they were amplified, hybridized, stained, and imaged using the Illumina iScan SQ instrument for further analysis. ..

    Purification:

    Article Title: PTPN11 -related Noonan syndrome predisposes to multifocal low-grade CNS tumors harboring FGFR1 variants
    Article Snippet: DNA from FFPE tissue was subsequently restored by using the Infinium FFPE DNA Restore kit (Illumina). .. Bisulfite-converted DNA was amplified, fragmented, and purified using the Infinium MethylationEPIC BeadChip Kit (Illumina) according to the manufacturer’s protocol, then hybridized to the BeadChip array (Illumina). .. The BeadChip array was washed, prepared, stained, and scanned on the Illumina NextSeq 550 (Illumina) per the manufacturer’s protocol. iDAT files were uploaded and classified using version 11b6 and 12.5 of the CNS tumor methylation classifier ( https://www.molecularneuropathology.org/mnp/ ).

    Staining:

    Article Title: Non-linear age-related change in human Interleukin-11 and the receptor subunit alpha DNA methylation
    Article Snippet: A total of 500 ng of DNA from each sample underwent bisulfite conversion using the EZ DNA Methylation kit (Zymo Research, USA). .. The bisulfite-converted DNA samples were then allocated to designated wells on the Infinium HumanMethylationEPIC BeadChip (Illumina Inc, USA), where they were amplified, hybridized, stained, and imaged using the Illumina iScan SQ instrument for further analysis. ..

    Formalin-fixed Paraffin-Embedded:

    Article Title: TET CpG sequence-context-specific DNA demethylation shapes progression of IDH-mutant gliomas.
    Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies MIB1/Ki-67 (Rabbit anti-human) Ventana Cat#790-4286; RRID: AB_2631262 Critical commercial assays Illumina Infinium MethylationEPIC BeadChip v1.0 (850k) Illumina Cat#WG-317-1003 QIAamp DNA FFPE Tissue Kit Qiagen Cat#56404 ultraView Universal DAB Detection Kit Roche Cat#760-500 Deposited data DNA Methylation data (GLASS-OD) This paper GEO: GSE297733 Proteomics raw data (GLASS-OD) This paper PRIDE: PXD070222 DNA Methylation differential analysis outcomes This paper Data S1: Zenodo: https://zenodo.org/records/ 1771174 Proteomics processed data ( GLASS-OD) This paper Data S2: Zenodo: https://zenodo.org/records/ 17711746 Proteomics differential analysis outcomes (GLASS-OD) This paper Data S3: Zenodo: https://zenodo.org/records/ 17711746 Proteomics differential analysis outcomes (GLASS-NL) This paper Data S4: Zenodo: https://zenodo.org/records/ 17711746 DNA Methylation data (Mair & Berghoff) https://doi.org/10.1158/ 1078-0432. ..



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    Image Search Results


    Validation of the LIFR promoter methylation for cancer specificity and its relationship with the expression of associated genes. (A) DNA methylation levels of target CpGs in public cancer methylome data (Infinium 450K BeadChip array) of four cancer types: colorectal ( n = 313 for cancer samples and n = 38 for normal samples), liver (377 and 50), lung (843 and 74), and stomach (395 and 2) cancers. Infinium CpG identification numbers (IDs) together with the associated gene names are shown; the Infinium IDs cg03723506 and cg11291081 indicate chr5:38557143 and chr3:37033894, respectively, in the Figure . Statistical significance was calculated using Wilcoxon rank sum test. T: tumor samples, N: normal samples. (B) Schematic drawing of COBRA region at the LIFR promoter. Blue arrows, primers. CGI, CpG island (green line). (C) COBRA analysis. Genomic DNA was extracted from each colon cancer cell lines along with a normal control colon cell line (CCD-18co) and subjected to COBRA using the Taq I enzyme to examine the methylation state at the LIFR gene promoter. Arrowhead and arrow indicate the positions of intact and Taq I-digested DNA fragments, respectively. The fraction (% meth) of methylated DNA was measured by band intensity analysis and noted under each cell line. (D) RT-PCR. The same cancer cell lines used in COBRA (C) were subjected to RT-PCR to measure the transcript levels of the LIFR and LIFR-AS genes.

    Journal: Frontiers in Genetics

    Article Title: Simultaneous Methylation-Level Assessment of Hundreds of CpG Sites by Targeted Bisulfite PCR Sequencing (TBPseq)

    doi: 10.3389/fgene.2017.00097

    Figure Lengend Snippet: Validation of the LIFR promoter methylation for cancer specificity and its relationship with the expression of associated genes. (A) DNA methylation levels of target CpGs in public cancer methylome data (Infinium 450K BeadChip array) of four cancer types: colorectal ( n = 313 for cancer samples and n = 38 for normal samples), liver (377 and 50), lung (843 and 74), and stomach (395 and 2) cancers. Infinium CpG identification numbers (IDs) together with the associated gene names are shown; the Infinium IDs cg03723506 and cg11291081 indicate chr5:38557143 and chr3:37033894, respectively, in the Figure . Statistical significance was calculated using Wilcoxon rank sum test. T: tumor samples, N: normal samples. (B) Schematic drawing of COBRA region at the LIFR promoter. Blue arrows, primers. CGI, CpG island (green line). (C) COBRA analysis. Genomic DNA was extracted from each colon cancer cell lines along with a normal control colon cell line (CCD-18co) and subjected to COBRA using the Taq I enzyme to examine the methylation state at the LIFR gene promoter. Arrowhead and arrow indicate the positions of intact and Taq I-digested DNA fragments, respectively. The fraction (% meth) of methylated DNA was measured by band intensity analysis and noted under each cell line. (D) RT-PCR. The same cancer cell lines used in COBRA (C) were subjected to RT-PCR to measure the transcript levels of the LIFR and LIFR-AS genes.

    Article Snippet: The panel composition is highly flexible and can accommodate a variety of experimental designs, a big advantage over other methylation analysis platforms such as the array-based Infinium BeadChip.

    Techniques: Biomarker Discovery, Methylation, Expressing, DNA Methylation Assay, Combined Bisulfite Restriction Analysis Assay, Control, Reverse Transcription Polymerase Chain Reaction

    Potential processes leading to a genetically driven methylation site. Three potential processes can lead to an association of a genetic variant and a trimodal distribution of CpG methylation: (1) “Spillover from a neighboring CpG site” that is deleted by a SNP by processes of local methylation maintenance, (2) SNP-induced changes in gene expression activity may have a feedback effect on DNA methylation due to differences in the translation machinery that leaves methylation marks on the DNA, and (3) SNP-induced changes in gene function may induce different levels of gene expression that are implemented by changes in promoter gene methylation

    Journal: Clinical Epigenetics

    Article Title: Mendelian inheritance of trimodal CpG methylation sites suggests distal cis-acting genetic effects

    doi: 10.1186/s13148-016-0295-1

    Figure Lengend Snippet: Potential processes leading to a genetically driven methylation site. Three potential processes can lead to an association of a genetic variant and a trimodal distribution of CpG methylation: (1) “Spillover from a neighboring CpG site” that is deleted by a SNP by processes of local methylation maintenance, (2) SNP-induced changes in gene expression activity may have a feedback effect on DNA methylation due to differences in the translation machinery that leaves methylation marks on the DNA, and (3) SNP-induced changes in gene function may induce different levels of gene expression that are implemented by changes in promoter gene methylation

    Article Snippet: Array-based DNA methylation data (Infinium HumanMethylation 450 BeadChip platform [ ]) was obtained for these subjects.

    Techniques: Methylation, Variant Assay, CpG Methylation Assay, Expressing, Activity Assay, DNA Methylation Assay