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mspi  (New England Biolabs)


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    New England Biolabs mspi
    Schematic of FLEXseq design and workflow. ( a ) The design goal and workflow of FLEXseq. The design aims to sequence adjacent regions flanking CCGG motifs while preserving the methylation markers at the motif. Information-poor regions are suppressed, while information-rich CCGG flanking regions are amplified. In the workflow, <t>input</t> <t>DNA</t> fragments are first ligated with a semi-permissive Adapter A, which serves both as an essential blocker for untargeted DNA and a required piece of targeted DNA. The nuclease <t>MspI</t> then cuts at the CCGG motif regardless of methylation status, followed by the ligation of Adapter B. Only molecules with both Adapters A and B are amplified and sequenced. ( b ) The overall workflow and analyses. Specimen inputs are sheared genomic (g)DNA from cells, cfDNA from body fluid and plasma, and fragmented DNA from formalin-fixed paraffin-embedded (FFPE) tissues. Analyses include copy number detection for malignant aneuploidy and deconvolution of cell types.
    Mspi, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 3500 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/mspi/MspI/pmc13171454-89-8-10
    Average 99 stars, based on 3500 article reviews
    mspi - by Bioz Stars, 2026-10
    99/100 stars

    Images

    1) Product Images from "Enriched methylomes of low-input and fragmented DNA using fragment ligation EXclusive methylation sequencing"

    Article Title: Enriched methylomes of low-input and fragmented DNA using fragment ligation EXclusive methylation sequencing

    Journal: Nucleic Acids Research

    doi: 10.1093/nar/gkag385

    Schematic of FLEXseq design and workflow. ( a ) The design goal and workflow of FLEXseq. The design aims to sequence adjacent regions flanking CCGG motifs while preserving the methylation markers at the motif. Information-poor regions are suppressed, while information-rich CCGG flanking regions are amplified. In the workflow, input DNA fragments are first ligated with a semi-permissive Adapter A, which serves both as an essential blocker for untargeted DNA and a required piece of targeted DNA. The nuclease MspI then cuts at the CCGG motif regardless of methylation status, followed by the ligation of Adapter B. Only molecules with both Adapters A and B are amplified and sequenced. ( b ) The overall workflow and analyses. Specimen inputs are sheared genomic (g)DNA from cells, cfDNA from body fluid and plasma, and fragmented DNA from formalin-fixed paraffin-embedded (FFPE) tissues. Analyses include copy number detection for malignant aneuploidy and deconvolution of cell types.
    Figure Legend Snippet: Schematic of FLEXseq design and workflow. ( a ) The design goal and workflow of FLEXseq. The design aims to sequence adjacent regions flanking CCGG motifs while preserving the methylation markers at the motif. Information-poor regions are suppressed, while information-rich CCGG flanking regions are amplified. In the workflow, input DNA fragments are first ligated with a semi-permissive Adapter A, which serves both as an essential blocker for untargeted DNA and a required piece of targeted DNA. The nuclease MspI then cuts at the CCGG motif regardless of methylation status, followed by the ligation of Adapter B. Only molecules with both Adapters A and B are amplified and sequenced. ( b ) The overall workflow and analyses. Specimen inputs are sheared genomic (g)DNA from cells, cfDNA from body fluid and plasma, and fragmented DNA from formalin-fixed paraffin-embedded (FFPE) tissues. Analyses include copy number detection for malignant aneuploidy and deconvolution of cell types.

    Techniques Used: Sequencing, Preserving, Methylation, Amplification, Ligation, Clinical Proteomics, Formalin-fixed Paraffin-Embedded

    Related Articles

    Adapter Ligation:

    Article Title: Multi-omics reveals molecular signatures of moderate intensity exercise and identifies candidate exercise mimetics in mice.
    Article Snippet: .. Genomic DNA (1 μg per sample) from gastrocnemius muscle was digested with MspI (New England Biolabs, Ipswich, MA, USA) and processed using the Zymo-Seq RRBS Library Kit (Zymo Research), followed by end repair, 3′- adenylation, and adapter ligation using the TruSeq ChIP-Seq Sample Preparation Kit (Illumina). .. Libraries were pooled and sequenced on an Illumina NovaSeq 6000 platform (paired-end, 2 × 150 bp).

    Chromatin Immunoprecipitation:

    Article Title: Multi-omics reveals molecular signatures of moderate intensity exercise and identifies candidate exercise mimetics in mice.
    Article Snippet: .. Genomic DNA (1 μg per sample) from gastrocnemius muscle was digested with MspI (New England Biolabs, Ipswich, MA, USA) and processed using the Zymo-Seq RRBS Library Kit (Zymo Research), followed by end repair, 3′- adenylation, and adapter ligation using the TruSeq ChIP-Seq Sample Preparation Kit (Illumina). .. Libraries were pooled and sequenced on an Illumina NovaSeq 6000 platform (paired-end, 2 × 150 bp).

    Sample Prep:

    Article Title: Multi-omics reveals molecular signatures of moderate intensity exercise and identifies candidate exercise mimetics in mice.
    Article Snippet: .. Genomic DNA (1 μg per sample) from gastrocnemius muscle was digested with MspI (New England Biolabs, Ipswich, MA, USA) and processed using the Zymo-Seq RRBS Library Kit (Zymo Research), followed by end repair, 3′- adenylation, and adapter ligation using the TruSeq ChIP-Seq Sample Preparation Kit (Illumina). .. Libraries were pooled and sequenced on an Illumina NovaSeq 6000 platform (paired-end, 2 × 150 bp).

    Polymerase Chain Reaction:

    Article Title: The presence of leaf rust resistance genes <i>Lr2a, Lr14a, Lr16, Lr21</i> , and <i>Lr34</i> in Canada Western Red Spring wheat cultivars 1939–2024
    Article Snippet: Genetic resistance has played a significant role in reducing losses to wheat leaf rust, caused by Puccinia triticina Erikss. in Canadian wheat.. Highly predictive molecular markers have been developed for some of the key resistance genes used in Canadian wheat.. All the cultivars grown on a significant area for the largest wheat class in Canada, Canada Western Red Spring (CWRS), were genotyped using markers with high predictive value for genes Lr2a, Lr14a, Lr16, Lr21, and Lr34.



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    Schematic of FLEXseq design and workflow. ( a ) The design goal and workflow of FLEXseq. The design aims to sequence adjacent regions flanking CCGG motifs while preserving the methylation markers at the motif. Information-poor regions are suppressed, while information-rich CCGG flanking regions are amplified. In the workflow, <t>input</t> <t>DNA</t> fragments are first ligated with a semi-permissive Adapter A, which serves both as an essential blocker for untargeted DNA and a required piece of targeted DNA. The nuclease <t>MspI</t> then cuts at the CCGG motif regardless of methylation status, followed by the ligation of Adapter B. Only molecules with both Adapters A and B are amplified and sequenced. ( b ) The overall workflow and analyses. Specimen inputs are sheared genomic (g)DNA from cells, cfDNA from body fluid and plasma, and fragmented DNA from formalin-fixed paraffin-embedded (FFPE) tissues. Analyses include copy number detection for malignant aneuploidy and deconvolution of cell types.
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    Image Search Results


    Schematic of FLEXseq design and workflow. ( a ) The design goal and workflow of FLEXseq. The design aims to sequence adjacent regions flanking CCGG motifs while preserving the methylation markers at the motif. Information-poor regions are suppressed, while information-rich CCGG flanking regions are amplified. In the workflow, input DNA fragments are first ligated with a semi-permissive Adapter A, which serves both as an essential blocker for untargeted DNA and a required piece of targeted DNA. The nuclease MspI then cuts at the CCGG motif regardless of methylation status, followed by the ligation of Adapter B. Only molecules with both Adapters A and B are amplified and sequenced. ( b ) The overall workflow and analyses. Specimen inputs are sheared genomic (g)DNA from cells, cfDNA from body fluid and plasma, and fragmented DNA from formalin-fixed paraffin-embedded (FFPE) tissues. Analyses include copy number detection for malignant aneuploidy and deconvolution of cell types.

    Journal: Nucleic Acids Research

    Article Title: Enriched methylomes of low-input and fragmented DNA using fragment ligation EXclusive methylation sequencing

    doi: 10.1093/nar/gkag385

    Figure Lengend Snippet: Schematic of FLEXseq design and workflow. ( a ) The design goal and workflow of FLEXseq. The design aims to sequence adjacent regions flanking CCGG motifs while preserving the methylation markers at the motif. Information-poor regions are suppressed, while information-rich CCGG flanking regions are amplified. In the workflow, input DNA fragments are first ligated with a semi-permissive Adapter A, which serves both as an essential blocker for untargeted DNA and a required piece of targeted DNA. The nuclease MspI then cuts at the CCGG motif regardless of methylation status, followed by the ligation of Adapter B. Only molecules with both Adapters A and B are amplified and sequenced. ( b ) The overall workflow and analyses. Specimen inputs are sheared genomic (g)DNA from cells, cfDNA from body fluid and plasma, and fragmented DNA from formalin-fixed paraffin-embedded (FFPE) tissues. Analyses include copy number detection for malignant aneuploidy and deconvolution of cell types.

    Article Snippet: Sheared or unsheared genomic DNA was digested with MspI (R0106M, NEB), end-repaired, 3′-dA-tailed, and ligated to adapters using the NEBNext Ultra II modules (E7546L and E7595L, NEB).

    Techniques: Sequencing, Preserving, Methylation, Amplification, Ligation, Clinical Proteomics, Formalin-fixed Paraffin-Embedded