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Nugen ovation rrbs methyl seq system
Heatmaps of CpG methylation and hydroxymethylation changes in DMRs and DhMRs of lung DNA of female A/J mice exposed to ECS for 10 weeks as revealed by <t>RRBS</t> and <t>oxRRBS.</t> Each row represents a separate sample (ECS 1–4, controls 1–4), while columns indicate individual CpG sites. Red color indicates levels above the mean value, while green color indicates the levels below the mean. The dendrogram shows the hierarchical clustering relationships among samples. Replicates of control and treated samples cluster together, revealing ECS-induced changes. ( a ) Mean centered methylation fractions of CpG sites in DMRs (483 CpGs). ( b ) Mean centered hydroxymethylation fractions in DhMRs (17,952 CpGs).
Ovation Rrbs Methyl Seq System, supplied by Nugen, used in various techniques. Bioz Stars score: 90/100, based on 10 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/ovation rrbs methyl seq system/product/Nugen
Average 90 stars, based on 10 article reviews
Price from $9.99 to $1999.99
ovation rrbs methyl seq system - by Bioz Stars, 2020-09
90/100 stars

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1) Product Images from "Inhalation exposure to cigarette smoke and inflammatory agents induces epigenetic changes in the lung"

Article Title: Inhalation exposure to cigarette smoke and inflammatory agents induces epigenetic changes in the lung

Journal: Scientific Reports

doi: 10.1038/s41598-020-67502-8

Heatmaps of CpG methylation and hydroxymethylation changes in DMRs and DhMRs of lung DNA of female A/J mice exposed to ECS for 10 weeks as revealed by RRBS and oxRRBS. Each row represents a separate sample (ECS 1–4, controls 1–4), while columns indicate individual CpG sites. Red color indicates levels above the mean value, while green color indicates the levels below the mean. The dendrogram shows the hierarchical clustering relationships among samples. Replicates of control and treated samples cluster together, revealing ECS-induced changes. ( a ) Mean centered methylation fractions of CpG sites in DMRs (483 CpGs). ( b ) Mean centered hydroxymethylation fractions in DhMRs (17,952 CpGs).
Figure Legend Snippet: Heatmaps of CpG methylation and hydroxymethylation changes in DMRs and DhMRs of lung DNA of female A/J mice exposed to ECS for 10 weeks as revealed by RRBS and oxRRBS. Each row represents a separate sample (ECS 1–4, controls 1–4), while columns indicate individual CpG sites. Red color indicates levels above the mean value, while green color indicates the levels below the mean. The dendrogram shows the hierarchical clustering relationships among samples. Replicates of control and treated samples cluster together, revealing ECS-induced changes. ( a ) Mean centered methylation fractions of CpG sites in DMRs (483 CpGs). ( b ) Mean centered hydroxymethylation fractions in DhMRs (17,952 CpGs).

Techniques Used: CpG Methylation Assay, Mouse Assay, Methylation

DNA methylation changes in lung DNA of female A/J mice (N = 5) exposed to ECS for 10 weeks with or without aspirin co-treatment. ( a ) Global cytosine methylation levels determined by isotope dilution HPLC–ESI–MS/MS. Values represent the mean ± standard deviation of 5 independent measurements. ( b ) Violin plots of methylation fractions of CpG sites in gene bodies and promoters, as assayed by RRBS/oxRRBS. Differential methylation data was input into Ingenuity Pathway Analysis (IPA). ( c ) Top canonical pathways associated with DMRs. ( d ) Molecular and cellular functions associated with DMRs.
Figure Legend Snippet: DNA methylation changes in lung DNA of female A/J mice (N = 5) exposed to ECS for 10 weeks with or without aspirin co-treatment. ( a ) Global cytosine methylation levels determined by isotope dilution HPLC–ESI–MS/MS. Values represent the mean ± standard deviation of 5 independent measurements. ( b ) Violin plots of methylation fractions of CpG sites in gene bodies and promoters, as assayed by RRBS/oxRRBS. Differential methylation data was input into Ingenuity Pathway Analysis (IPA). ( c ) Top canonical pathways associated with DMRs. ( d ) Molecular and cellular functions associated with DMRs.

Techniques Used: DNA Methylation Assay, Mouse Assay, Methylation, Isotope Dilution, High Performance Liquid Chromatography, Tandem Mass Spectroscopy, Standard Deviation, Indirect Immunoperoxidase Assay

DNA hydroxymethylation changes in lung DNA of female A/J mice exposed to ECS for 10 weeks with or without aspirin co-treatment. ( a ) Global 5hmC levels as determined by isotope dilution HPLC–ESI–MS/MS. The values shown are mean ± standard deviation (N = 5). ( b) Violin plots of hydroxymethylation fraction of all assayed CpG sites in gene bodies and promoters determined by RRBS/oxRRBS. Differential hydroxymethylation data was subjected to Ingenuity Pathway Analysis (IPA). ( c ) Top diseases and disorders associated with hydroxymethylation changes. ( d ) Top molecular and cellular functions associated with hydroxymethylation changes. ( e ) Top upstream regulators associated with hydroxymethylation changes.
Figure Legend Snippet: DNA hydroxymethylation changes in lung DNA of female A/J mice exposed to ECS for 10 weeks with or without aspirin co-treatment. ( a ) Global 5hmC levels as determined by isotope dilution HPLC–ESI–MS/MS. The values shown are mean ± standard deviation (N = 5). ( b) Violin plots of hydroxymethylation fraction of all assayed CpG sites in gene bodies and promoters determined by RRBS/oxRRBS. Differential hydroxymethylation data was subjected to Ingenuity Pathway Analysis (IPA). ( c ) Top diseases and disorders associated with hydroxymethylation changes. ( d ) Top molecular and cellular functions associated with hydroxymethylation changes. ( e ) Top upstream regulators associated with hydroxymethylation changes.

Techniques Used: Mouse Assay, Isotope Dilution, High Performance Liquid Chromatography, Tandem Mass Spectroscopy, Standard Deviation, Indirect Immunoperoxidase Assay

Site-specific methylation and hydroxymethylation changes in lung DNA of female A/J mice exposed to ECS for 10 weeks as revealed by RRBS and oxRRBS. Differentially hydroxymethylated regions in gene bodies ( a ) and promoters ( b ). Correlation of 5mC and 5hmC at CpG sites within DMRs and DhMRs, numbers represent the counts of sites ( c ). Top canonical pathways from IPA analysis of sites showing: de novo gain of methylation in DMRs (Δ5mC > 0.1 and − 0.1
Figure Legend Snippet: Site-specific methylation and hydroxymethylation changes in lung DNA of female A/J mice exposed to ECS for 10 weeks as revealed by RRBS and oxRRBS. Differentially hydroxymethylated regions in gene bodies ( a ) and promoters ( b ). Correlation of 5mC and 5hmC at CpG sites within DMRs and DhMRs, numbers represent the counts of sites ( c ). Top canonical pathways from IPA analysis of sites showing: de novo gain of methylation in DMRs (Δ5mC > 0.1 and − 0.1

Techniques Used: Methylation, Mouse Assay, Indirect Immunoperoxidase Assay

Related Articles

Methylation Sequencing:

Article Title: Using long-read sequencing to detect imprinted DNA methylation
Article Snippet: .. Illumina sequencing Reduced Representation Bisulfite Sequencing (RRBS) libraries were made from 100 ng of DNA purified from the embryonic layer of a male B6 × Cast E14.5 placenta using the Ovation RRBS Methyl-Seq System (NuGEN), according to the manufacturer’s recommendations, which include use of the Qiagen Epitect kit for bisulfite conversion. .. The resultant library was sequenced on a HiSeq 2500 (Illumina) using 100 bp paired-end reads and analysed as previously described ( , ).

Article Title: Mice Exposed to Combined Chronic Low-Dose Irradiation and Modeled Microgravity Develop Long-Term Neurological Sequelae
Article Snippet: .. Reduced Representation Bisulfite Sequencing (RRBS) The RRBS library was constructed with 100 ng of gDNA as input using Ovation RRBS Methyl-Seq System (NuGEN Technologies) according to the manufacturer’s protocol. ..

Isolation:

Article Title: DNA methylome study of human cerebellar tissues identified genes and pathways possibly involved in essential tremor
Article Snippet: .. RRBS library construction Isolated genomics DNA (100 ng) of isolated genomics DNA was used for RRBS library construction using the Ovation® RRBS Methyl-Seq System (NuGEN Technologies, San Carlos, CA) according to the manufacturer’s protocol. .. Briefly, the methylation insensitive MspI enzyme, which cuts the DNA at 5’CCGG3’ sites, was used to digest genomics DNA into fragments.

Construct:

Article Title: Mice Exposed to Combined Chronic Low-Dose Irradiation and Modeled Microgravity Develop Long-Term Neurological Sequelae
Article Snippet: .. Reduced Representation Bisulfite Sequencing (RRBS) The RRBS library was constructed with 100 ng of gDNA as input using Ovation RRBS Methyl-Seq System (NuGEN Technologies) according to the manufacturer’s protocol. ..

Purification:

Article Title: Using long-read sequencing to detect imprinted DNA methylation
Article Snippet: .. Illumina sequencing Reduced Representation Bisulfite Sequencing (RRBS) libraries were made from 100 ng of DNA purified from the embryonic layer of a male B6 × Cast E14.5 placenta using the Ovation RRBS Methyl-Seq System (NuGEN), according to the manufacturer’s recommendations, which include use of the Qiagen Epitect kit for bisulfite conversion. .. The resultant library was sequenced on a HiSeq 2500 (Illumina) using 100 bp paired-end reads and analysed as previously described ( , ).

other:

Article Title: High concordance between Illumina HiSeq2500 and NextSeq500 for reduced representation bisulfite sequencing (RRBS)
Article Snippet: 4 Results We created an RRBS library using the Ovation RRBS Methyl-Seq System, from one E9.5 mouse embryo.

Sequencing:

Article Title: Using long-read sequencing to detect imprinted DNA methylation
Article Snippet: .. Illumina sequencing Reduced Representation Bisulfite Sequencing (RRBS) libraries were made from 100 ng of DNA purified from the embryonic layer of a male B6 × Cast E14.5 placenta using the Ovation RRBS Methyl-Seq System (NuGEN), according to the manufacturer’s recommendations, which include use of the Qiagen Epitect kit for bisulfite conversion. .. The resultant library was sequenced on a HiSeq 2500 (Illumina) using 100 bp paired-end reads and analysed as previously described ( , ).

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    Nugen ovation rrbs methyl seq system
    Heatmaps of CpG methylation and hydroxymethylation changes in DMRs and DhMRs of lung DNA of female A/J mice exposed to ECS for 10 weeks as revealed by <t>RRBS</t> and <t>oxRRBS.</t> Each row represents a separate sample (ECS 1–4, controls 1–4), while columns indicate individual CpG sites. Red color indicates levels above the mean value, while green color indicates the levels below the mean. The dendrogram shows the hierarchical clustering relationships among samples. Replicates of control and treated samples cluster together, revealing ECS-induced changes. ( a ) Mean centered methylation fractions of CpG sites in DMRs (483 CpGs). ( b ) Mean centered hydroxymethylation fractions in DhMRs (17,952 CpGs).
    Ovation Rrbs Methyl Seq System, supplied by Nugen, used in various techniques. Bioz Stars score: 90/100, based on 10 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/ovation rrbs methyl seq system/product/Nugen
    Average 90 stars, based on 10 article reviews
    Price from $9.99 to $1999.99
    ovation rrbs methyl seq system - by Bioz Stars, 2020-09
    90/100 stars
      Buy from Supplier

    91
    Nugen ovation rrbs methyl seq kit
    Heatmaps of CpG methylation and hydroxymethylation changes in DMRs and DhMRs of lung DNA of female A/J mice exposed to ECS for 10 weeks as revealed by <t>RRBS</t> and <t>oxRRBS.</t> Each row represents a separate sample (ECS 1–4, controls 1–4), while columns indicate individual CpG sites. Red color indicates levels above the mean value, while green color indicates the levels below the mean. The dendrogram shows the hierarchical clustering relationships among samples. Replicates of control and treated samples cluster together, revealing ECS-induced changes. ( a ) Mean centered methylation fractions of CpG sites in DMRs (483 CpGs). ( b ) Mean centered hydroxymethylation fractions in DhMRs (17,952 CpGs).
    Ovation Rrbs Methyl Seq Kit, supplied by Nugen, used in various techniques. Bioz Stars score: 91/100, based on 2 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/ovation rrbs methyl seq kit/product/Nugen
    Average 91 stars, based on 2 article reviews
    Price from $9.99 to $1999.99
    ovation rrbs methyl seq kit - by Bioz Stars, 2020-09
    91/100 stars
      Buy from Supplier

    Image Search Results


    Heatmaps of CpG methylation and hydroxymethylation changes in DMRs and DhMRs of lung DNA of female A/J mice exposed to ECS for 10 weeks as revealed by RRBS and oxRRBS. Each row represents a separate sample (ECS 1–4, controls 1–4), while columns indicate individual CpG sites. Red color indicates levels above the mean value, while green color indicates the levels below the mean. The dendrogram shows the hierarchical clustering relationships among samples. Replicates of control and treated samples cluster together, revealing ECS-induced changes. ( a ) Mean centered methylation fractions of CpG sites in DMRs (483 CpGs). ( b ) Mean centered hydroxymethylation fractions in DhMRs (17,952 CpGs).

    Journal: Scientific Reports

    Article Title: Inhalation exposure to cigarette smoke and inflammatory agents induces epigenetic changes in the lung

    doi: 10.1038/s41598-020-67502-8

    Figure Lengend Snippet: Heatmaps of CpG methylation and hydroxymethylation changes in DMRs and DhMRs of lung DNA of female A/J mice exposed to ECS for 10 weeks as revealed by RRBS and oxRRBS. Each row represents a separate sample (ECS 1–4, controls 1–4), while columns indicate individual CpG sites. Red color indicates levels above the mean value, while green color indicates the levels below the mean. The dendrogram shows the hierarchical clustering relationships among samples. Replicates of control and treated samples cluster together, revealing ECS-induced changes. ( a ) Mean centered methylation fractions of CpG sites in DMRs (483 CpGs). ( b ) Mean centered hydroxymethylation fractions in DhMRs (17,952 CpGs).

    Article Snippet: RRBS and oxRRBS DNA was prepared for RRBS and oxRRBS using the Ovation RRBS Methyl-Seq system with TrueMethyl oxBS module (NuGEN, Redwood City, CA) according to the manufacturer’s protocol.

    Techniques: CpG Methylation Assay, Mouse Assay, Methylation

    DNA methylation changes in lung DNA of female A/J mice (N = 5) exposed to ECS for 10 weeks with or without aspirin co-treatment. ( a ) Global cytosine methylation levels determined by isotope dilution HPLC–ESI–MS/MS. Values represent the mean ± standard deviation of 5 independent measurements. ( b ) Violin plots of methylation fractions of CpG sites in gene bodies and promoters, as assayed by RRBS/oxRRBS. Differential methylation data was input into Ingenuity Pathway Analysis (IPA). ( c ) Top canonical pathways associated with DMRs. ( d ) Molecular and cellular functions associated with DMRs.

    Journal: Scientific Reports

    Article Title: Inhalation exposure to cigarette smoke and inflammatory agents induces epigenetic changes in the lung

    doi: 10.1038/s41598-020-67502-8

    Figure Lengend Snippet: DNA methylation changes in lung DNA of female A/J mice (N = 5) exposed to ECS for 10 weeks with or without aspirin co-treatment. ( a ) Global cytosine methylation levels determined by isotope dilution HPLC–ESI–MS/MS. Values represent the mean ± standard deviation of 5 independent measurements. ( b ) Violin plots of methylation fractions of CpG sites in gene bodies and promoters, as assayed by RRBS/oxRRBS. Differential methylation data was input into Ingenuity Pathway Analysis (IPA). ( c ) Top canonical pathways associated with DMRs. ( d ) Molecular and cellular functions associated with DMRs.

    Article Snippet: RRBS and oxRRBS DNA was prepared for RRBS and oxRRBS using the Ovation RRBS Methyl-Seq system with TrueMethyl oxBS module (NuGEN, Redwood City, CA) according to the manufacturer’s protocol.

    Techniques: DNA Methylation Assay, Mouse Assay, Methylation, Isotope Dilution, High Performance Liquid Chromatography, Tandem Mass Spectroscopy, Standard Deviation, Indirect Immunoperoxidase Assay

    DNA hydroxymethylation changes in lung DNA of female A/J mice exposed to ECS for 10 weeks with or without aspirin co-treatment. ( a ) Global 5hmC levels as determined by isotope dilution HPLC–ESI–MS/MS. The values shown are mean ± standard deviation (N = 5). ( b) Violin plots of hydroxymethylation fraction of all assayed CpG sites in gene bodies and promoters determined by RRBS/oxRRBS. Differential hydroxymethylation data was subjected to Ingenuity Pathway Analysis (IPA). ( c ) Top diseases and disorders associated with hydroxymethylation changes. ( d ) Top molecular and cellular functions associated with hydroxymethylation changes. ( e ) Top upstream regulators associated with hydroxymethylation changes.

    Journal: Scientific Reports

    Article Title: Inhalation exposure to cigarette smoke and inflammatory agents induces epigenetic changes in the lung

    doi: 10.1038/s41598-020-67502-8

    Figure Lengend Snippet: DNA hydroxymethylation changes in lung DNA of female A/J mice exposed to ECS for 10 weeks with or without aspirin co-treatment. ( a ) Global 5hmC levels as determined by isotope dilution HPLC–ESI–MS/MS. The values shown are mean ± standard deviation (N = 5). ( b) Violin plots of hydroxymethylation fraction of all assayed CpG sites in gene bodies and promoters determined by RRBS/oxRRBS. Differential hydroxymethylation data was subjected to Ingenuity Pathway Analysis (IPA). ( c ) Top diseases and disorders associated with hydroxymethylation changes. ( d ) Top molecular and cellular functions associated with hydroxymethylation changes. ( e ) Top upstream regulators associated with hydroxymethylation changes.

    Article Snippet: RRBS and oxRRBS DNA was prepared for RRBS and oxRRBS using the Ovation RRBS Methyl-Seq system with TrueMethyl oxBS module (NuGEN, Redwood City, CA) according to the manufacturer’s protocol.

    Techniques: Mouse Assay, Isotope Dilution, High Performance Liquid Chromatography, Tandem Mass Spectroscopy, Standard Deviation, Indirect Immunoperoxidase Assay

    Site-specific methylation and hydroxymethylation changes in lung DNA of female A/J mice exposed to ECS for 10 weeks as revealed by RRBS and oxRRBS. Differentially hydroxymethylated regions in gene bodies ( a ) and promoters ( b ). Correlation of 5mC and 5hmC at CpG sites within DMRs and DhMRs, numbers represent the counts of sites ( c ). Top canonical pathways from IPA analysis of sites showing: de novo gain of methylation in DMRs (Δ5mC > 0.1 and − 0.1

    Journal: Scientific Reports

    Article Title: Inhalation exposure to cigarette smoke and inflammatory agents induces epigenetic changes in the lung

    doi: 10.1038/s41598-020-67502-8

    Figure Lengend Snippet: Site-specific methylation and hydroxymethylation changes in lung DNA of female A/J mice exposed to ECS for 10 weeks as revealed by RRBS and oxRRBS. Differentially hydroxymethylated regions in gene bodies ( a ) and promoters ( b ). Correlation of 5mC and 5hmC at CpG sites within DMRs and DhMRs, numbers represent the counts of sites ( c ). Top canonical pathways from IPA analysis of sites showing: de novo gain of methylation in DMRs (Δ5mC > 0.1 and − 0.1

    Article Snippet: RRBS and oxRRBS DNA was prepared for RRBS and oxRRBS using the Ovation RRBS Methyl-Seq system with TrueMethyl oxBS module (NuGEN, Redwood City, CA) according to the manufacturer’s protocol.

    Techniques: Methylation, Mouse Assay, Indirect Immunoperoxidase Assay