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dpnii buffer  (New England Biolabs)


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    Structured Review

    New England Biolabs dpnii buffer
    Dpnii Buffer, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1734 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/dpn+ii+buffer/Dpn+II/bio_rxiv__64898__2026__05__06__722996-296-6-17
    Average 99 stars, based on 1734 article reviews
    dpnii buffer - by Bioz Stars, 2026-11
    99/100 stars

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    Incubation:

    Article Title: CTCF N-terminal Domain Regulates Clustered Protocadherin Gene Expression by Enhancing Cohesin Processivity
    Article Snippet: .. Cells were then resuspended in 73 μl of nuclease-free water, followed by the addition of 10 μl of 10 × Dpn II buffer (NEB R0543L) and 2.5 μl of 10% SDS, and incubation at 37°C with constant shaking at 900 rpm. .. After 1 h, 12.5 μl of 20% Triton X-100 (Sigma-Aldrich T8787) was added to the sample, and the sample was incubated at 37°C for an additional hour with constant shaking at 900 rpm.

    Article Title: WAVE2 and REST/NRSF Regulate Clustered Gene Expression by Maintaining Heterochromatin Organization
    Article Snippet: .. Nuclei were pelleted (800 × g, 5 min, 4°C) and resuspended in 73 μl of nuclease-free water, 10 μl of Dpn II buffer (NEB, MA, USA), and 2.5 μl of 10% SDS and incubated for 1 h at 37°C with shaking at 900 rpm. ..

    Article Title: CCCTC-binding factor N-terminal domain regulates clustered protocadherin gene expression by enhancing cohesin processivity
    Article Snippet: .. Cells were then resuspended in 73 μl of nuclease-free water, followed by the addition of 10 μl of 10 × Dpn II buffer (NEB R0543L) and 2.5 μl of 10% SDS, and incubation at 37 °C with constant shaking at 900 rpm. .. After 1 h, 12.5 μl of 20% Triton X-100 (Sigma-Aldrich T8787) was added to the sample, and the sample was incubated at 37 °C for an additional hour with constant shaking at 900 rpm.

    other:

    Article Title: Temporal analyses reveal a pivotal role for sense and antisense enhancer RNAs in coordinate immunoglobulin lambda locus activation
    Article Snippet: ChIP experiments in PIPER-15 cells and with anti-E2A and anti-MED1 antibodies in primary pro- and pre-B cells, were performed according to Nowak et al. ( ) by first cross-linking with 2 mM Disuccinimidyl Glutarate (DSG, Sigma 80424) and then with 1% formaldehyde.

    Article Title: Cohesin‐mediated DNA loop extrusion resolves sister chromatids in G2 phase
    Article Snippet: After the final wash, wild-type medium containing 200 ng ml 1 nocodazole (Sigma Aldrich, M1404) was added to the cells.

    Article Title: Topological screen identifies hundreds of Cp190- and CTCF-dependent Drosophila chromatin insulator elements
    Article Snippet: Briefly, 2 × 10 7 cells were cross-linked by incubating in fix buffer [2% formaldehyde, 15 mM Hepes (pH 7.6), 60 mM KCl, 15 mM NaCl, 4 mM MgCl 2 , 0.1% Triton X-100, 0.5 mM dithiothreitol, and protease inhibitor cocktail (Roche)] for a total of 10 min at 25°C and 750 rpm on a shaker.

    Blocking Assay:

    Article Title: Cohesin-mediated DNA loop extrusion resolves sister chromatids in G2 phase
    Article Snippet: All centrifugations were performed at 2500 g, apart from those in the ethanol precipitation step, which were performed at 21000 g. Frozen cell pellets were thawed and then lysed using ice cold Hi-C lysis buffer (10 mM TRIS-HCl pH 8 (Sigma), 10 mM NaCl (Sigma), 0.2% Nonidet P-40 substitute (Sigma), 1 × complete EDTA-free protease inhibitor (Roche) for 30 min at 4 °C. .. The DNA was then digested using Dpn II (375 U DpnII (NEB, R0543 T/M/L) in 1× Dpn II buffer (NEB, B0543S) for 16 h at 37 °C with shaking at 800 rpm on a thermal block. .. All centrifugations were performed at 2500 g, apart from those in the ethanol precipitation step, which were performed at 21000 g. Frozen cell pellets were thawed and then lysed using ice cold Hi-C lysis buffer (10 mM TRIS-HCl pH 8 (Sigma), 10 mM NaCl (Sigma), 0.2% Nonidet P-40 substitute (Sigma), 1 × complete EDTA-free protease inhibitor (Roche) for 30 min at 4 °C.



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