msres (New England Biolabs)

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New England Biolabs msres

If <t>allele-specific</t> <t>DNA</t> methylation (ASM) around heterozygous SNP A/C exists (which is hypermethylated around A allele and hypomethylated around C allele), SNP is called A/C in micro array before digestion and A/A after digestion by <t>MSREs.</t> Thus, the probes heterozygous in uncut genomic DNA and homozygous in MSREs-digested DNA indicate ASM around SNP. Because we expect methylation skew between two alleles, all heterozygous SNPs which the ratio of signal intensities given two alleles changed after digestion should be extracted. SNP, single-nucleotide polymorphisms; MSREs, methylation-sensitive restriction enzymes, which contain HpaII ( 5′-CˆCGG-3′ ), HhaI ( 5′-GCGˆC-3′ ), and AciI ( 5′-CˆCGC-3′ ).

Msres, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 97/100, based on 2393 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/microarray+hybridization+dna+microarray+analyses/HpaII/pmc05856270-104-10-18
Average 97 stars, based on 2393 article reviews

msres - by Bioz Stars, 2026-10

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1) Product Images from "Allele-specific DNA methylation of disease susceptibility genes in Japanese patients with inflammatory bowel disease"

Article Title: Allele-specific DNA methylation of disease susceptibility genes in Japanese patients with inflammatory bowel disease

Journal: PLoS ONE

doi: 10.1371/journal.pone.0194036

If allele-specific DNA methylation (ASM) around heterozygous SNP A/C exists (which is hypermethylated around A allele and hypomethylated around C allele), SNP is called A/C in micro array before digestion and A/A after digestion by MSREs. Thus, the probes heterozygous in uncut genomic DNA and homozygous in MSREs-digested DNA indicate ASM around SNP. Because we expect methylation skew between two alleles, all heterozygous SNPs which the ratio of signal intensities given two alleles changed after digestion should be extracted. SNP, single-nucleotide polymorphisms; MSREs, methylation-sensitive restriction enzymes, which contain HpaII ( 5′-CˆCGG-3′ ), HhaI ( 5′-GCGˆC-3′ ), and AciI ( 5′-CˆCGC-3′ ).

Figure Legend Snippet: If allele-specific DNA methylation (ASM) around heterozygous SNP A/C exists (which is hypermethylated around A allele and hypomethylated around C allele), SNP is called A/C in micro array before digestion and A/A after digestion by MSREs. Thus, the probes heterozygous in uncut genomic DNA and homozygous in MSREs-digested DNA indicate ASM around SNP. Because we expect methylation skew between two alleles, all heterozygous SNPs which the ratio of signal intensities given two alleles changed after digestion should be extracted. SNP, single-nucleotide polymorphisms; MSREs, methylation-sensitive restriction enzymes, which contain HpaII ( 5′-CˆCGG-3′ ), HhaI ( 5′-GCGˆC-3′ ), and AciI ( 5′-CˆCGC-3′ ).

Techniques Used: DNA Methylation Assay, Microarray, Methylation

SNP, single-nucleotide polymorphism; MSRE, methylation-sensitive restriction enzyme; RAS, relative allele score; IBD, inflammatory bowel disease; (G), genomic DNA; (D), DNA digested MSREs; (U), whole-genome-amplified fully unmethylated DNA digested MSREs.

Figure Legend Snippet: SNP, single-nucleotide polymorphism; MSRE, methylation-sensitive restriction enzyme; RAS, relative allele score; IBD, inflammatory bowel disease; (G), genomic DNA; (D), DNA digested MSREs; (U), whole-genome-amplified fully unmethylated DNA digested MSREs.

Techniques Used: Methylation, Amplification

Clinical Proteomics:

Article Title: Genome-wide cell-free DNA methylation profiling via TAPS for moyamoya disease diagnosis and postoperative collateral formation prediction.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Biological samples Plasma samples from patients with moyamoya disease (MMD) and atherosclerotic cerebrovascular disease (ACVD) Zhongnan Hospital of Wuhan University Nanjing Drum Tower Hospital, Guangdong Sanjiu Brain Hospital, and Hainan Second People’s Hospital N/A Middle cerebral artery (MCA) samples from patients with MMD Zhongnan Hospital of Wuhan University N/A Lambda DNA Thermo Fisher Cat. #SD0021 Chemicals, peptides, and recombinant proteins α-ketoglutarate Sigma Cat. #K3752 Adenosine triphosphate (ATP) Sigma Cat. #A6419 Dithiothreitol (DTT) Biofroxx Cat. #1111GR005 Ascorbic acid Sigma Cat. #95210 Ammonium iron (II) sulfate Sigma Cat. #215406 Tween 20 Biosharp Cat. #BS100 Sodium acetate solution (pH 4.0) Prepared in-house N/A Pic-borane (pyridine borane) Alfa Aesar Cat. #H66642 EDTA (in blood collection tubes) BD Bioscience N/A mTET2 enzyme (recombinant dioxygenase) Vazyme Cat. #EM301 M.SssI methyltransferase New England Biolabs (NEB) Cat. #M0226L Tris-HCl (pH 8.0) Biosharp Cat. #BL538A HpaII New England Biolabs (NEB) Cat. #R0171 Critical commercial assays High Sensitivity D1000 DNA ScreenTape Agilent Technologies Cat. #5067–5584 High Sensitivity D1000 Reagents Agilent Technologies Cat. #5067–5585 High Sensitivity D5000 DNA ScreenTape Agilent Technologies Cat. # 5067–5592 High Sensitivity D5000 Reagents Agilent Technologies Cat. #5067–5593 Qubit dsDNA HS Assay Kit Thermo Fisher Scientific Cat. #Q32854 Qubit RNA HS Assay Kit Thermo Fisher Scientific Cat. #Q32855 SMARTer RNA Unique Dual Index Kit-96U Takara Bio Cat. #634452 SMARTer Stranded Total RNA-Seq Kit v2 - Pico Input Mammalian Takara Bio Cat. #634413 VAHTS Serum/Plasma Circulating DNA Kit Vazyme Cat. #N902 AMPure XP beads Beckman Coulter Cat. #A63881 VAHTS Unique Dual Index Adaptor for Illumina Vazyme Cat. #N34201 VAHTS Universal DNA Library Prep Kit for Illumina V3 Vazyme Cat. #ND607 VAHTS HiFi amplification mix V3 Vazyme Cat. #NE103-P1 VAHTS Library Quantification Kit for Illumina Vazyme Cat. #NQ107-01 Phusion High-Fidelity DNA Polymerase New England Biolabs (NEB) Cat. #M0531 RNAiso Plus Takara Bio Cat. #9109 Oligo Clean & Concentrator-5 kit Zymo Research Cat. #D4061 (Continued on next page) Cell Reports Medicine 7, 103075, October 20, 2026 e1 Article ll OPEN ACCESS ..

Lambda DNA Preparation:

Recombinant:

Sensitivity:

Qubit:

RNA HS Assay:

RNA Sequencing:

Amplification:

Library Quantification:

Polymerase Chain Reaction:

Article Title: Genetic Diversity of ‘Candidatus Phytoplasma solani’ in Plant Hosts and Insect Vectors in Winegrowing Regions in Germany
Article Snippet: .. PCR products were subjected to restriction analysis using HpaII endonuclease (R0171S, New England Biolabs, Ipswich, USA). ..

Article Title: Identification and validation of liquid biopsy-based methylation biomarkers for germ cell tumor subtypes.
Article Snippet: .. Per experiment, PCR mastermixes were prepared containing APC/DPP7/GATA4/FBRS primer pairs (integrated DNA technologies), SYBR green dye (Thermofisher), Milli-Q, and either a total MSRE input of 1 unit (AciI + HhaI for APC, HpaII + HhaI for DPP7, HpaII for GATA4, and AciI + HpaII for FBRS) or Diluent A (all from New England Biolabs). ..

Article Title: High-throughput analyses of Phocaeicola vulgatus reveal fitness determinants for gut colonization and during colitis
Article Snippet: .. This PCR product was then digested with HpaII (NEB), which cuts asymmetrically within the invertible region so that the on fragment would produce 431 bp and 149 bp digestion products while the promoter off orientation would produce 313 bp and 267 bp cleavage products. ..

SYBR Green Assay:

Methylation:

Article Title: Leptin levels associated with obesity induce global DNA hypomethylation increasing EMT-associated genes expression in breast epithelial mammary cells
Article Snippet: Article in Press Breast Cancer Research https://doi.org/10.1186/s13058-026-02391-9 qMSRE experiments DNA extraction was performed using QIAamp DNA Mini QIAcube Kit (#51326, Qiagen, France). .. 10-100ng of DNA were digested with 40 U of “methylation sensitive enzymes” at 37 °C for 2 h in 50 μl of reaction (AciI, HpaII and HhaI (#R0551L, #R0171L and #R0139L NEB, France). ..

Article Title: MeCP2 requires interactions with nucleosome linker DNA to read chromatin DNA methylation.
Article Snippet: Fluorescent dyes, biotin tags and asymmetric methyl-cytosine bases were incorporated into HPLC pure primers used in amplification PCR steps (IDT technologies). .. Enzymatic methylation was added to DNA at CpG sites using methyltransferase enzymes M.HhaI or M.HpaII (NEB). .. Reactions were set up with 1 unit of methyltransferase per μg of DNA, 640 μM S-adenosylmethionine (SAM) (NEB) and 1x rCutsmart buffer (NEB).

Article Title: MeCP2 requires interactions with nucleosome linker DNA to read chromatin DNA methylation.
Article Snippet: .. Methylation state was checked by digestion with methylation sensitive HhaI or HpaII restriction enzymes (NEB). ..

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